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This page was generated on 2025-10-18 12:03 -0400 (Sat, 18 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4887
lconwaymacOS 12.7.6 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4677
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4622
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4632
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 209/2353HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-10-17 13:45 -0400 (Fri, 17 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 12.7.6 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
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: 2025-10-17 21:30:46 -0400 (Fri, 17 Oct 2025)
EndedAt: 2025-10-17 21:31:59 -0400 (Fri, 17 Oct 2025)
EllapsedTime: 73.1 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings biodbChebi_1.15.1.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 [2025-10-17 21:31:33.665][biodb::testContext]
biodb.INFO [2025-10-17 21:31:33.668][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-17 21:31:33.669][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-10-17 21:31:33.670][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-17 21:31:33.671][biodb::testContext]
biodb.INFO [2025-10-17 21:31:33.678][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-17 21:31:33.680][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-17 21:31:33.687][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 21:31:33.688][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-17 21:31:33.690][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-17 21:31:33.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:33.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:33.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:33.693][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-17 21:31:33.713][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-17 21:31:33.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:33.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:33.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:33.718][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-17 21:31:33.719][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-17 21:31:33.732][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:33.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:33.734][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:33.735][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-17 21:31:33.736][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-17 21:31:33.738][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-17 21:31:33.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:33.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:33.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:33.741][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-17 21:31:33.742][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-17 21:31:33.743][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-17 21:31:33.744][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:33.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:33.746][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:33.747][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-17 21:31:33.748][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-17 21:31:33.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:33.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:33.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:33.751][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-17 21:31:33.752][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-17 21:31:33.753][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-17 21:31:33.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:33.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:33.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:33.756][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-17 21:31:33.757][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-17 21:31:33.758][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:33.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:33.760][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[2025-10-17 21:31:33.761][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-17 21:31:33.769][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-17 21:31:33.771][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-17 21:31:33.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:33.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:33.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:33.776][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-17 21:31:33.777][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-17 21:31:33.778][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-17 21:31:33.780][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-17 21:31:33.781][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-17 21:31:33.782][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-17 21:31:33.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:33.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:33.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:33.786][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-17 21:31:33.787][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-17 21:31:33.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:33.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:33.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:33.792][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-17 21:31:33.793][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-17 21:31:33.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:33.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:33.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:33.797][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-17 21:31:33.798][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-17 21:31:33.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:33.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:33.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:33.802][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-17 21:31:33.803][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-17 21:31:33.804][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-17 21:31:33.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:33.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:33.807][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.DEBUG[2025-10-17 21:31:33.808][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-17 21:31:33.809][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-17 21:31:33.813][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-17 21:31:33.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:33.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:33.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:33.817][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-17 21:31:33.819][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-17 21:31:33.820][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-17 21:31:33.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:33.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:33.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:33.828][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-17 21:31:33.872][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:33.890][self$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[2025-10-17 21:31:33.892][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:33.893][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 21:31:33.894][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:33.895][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 21:31:33.896][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:33.897][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 21:31:33.899][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-17 21:31:33.900][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 21:31:33.901][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:33.902][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-17 21:31:33.903][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 21:31:33.904][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:33.905][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:33.906][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 21:31:33.906][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 21:31:33.906][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 21:31:33.906][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-17 21:31:33.906][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-17 21:31:33.907][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 21:31:33.909][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:33.910][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:33.911][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 21:31:33.912][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:33.913][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:33.914][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 21:31:33.915][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:33.916][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 21:31:33.917][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 21:31:33.918][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:33.919][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:33.920][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-17 21:31:33.922][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:33.923][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-17 21:31:33.924][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:33.925][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 21:31:33.926][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:33.927][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 21:31:33.928][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:33.929][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 21:31:33.930][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-17 21:31:33.932][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 21:31:33.933][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:33.934][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-17 21:31:33.935][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 21:31:33.936][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:33.937][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:33.938][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 21:31:33.938][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 21:31:33.938][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 21:31:33.938][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-17 21:31:33.938][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-17 21:31:33.939][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 21:31:33.940][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:33.941][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:33.942][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 21:31:33.943][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:33.944][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:33.945][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 21:31:33.946][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:33.947][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 21:31:33.948][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 21:31:33.949][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:33.950][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:33.952][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-17 21:31:33.954][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:33.955][self$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[2025-10-17 21:31:33.956][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:33.957][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 21:31:33.958][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:33.959][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 21:31:33.960][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:33.961][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 21:31:33.963][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-17 21:31:33.964][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 21:31:33.965][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:33.967][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-17 21:31:33.968][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 21:31:33.969][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:33.971][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:33.972][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:33.973][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 21:31:33.975][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:33.976][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:33.977][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 21:31:33.978][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:33.979][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:33.980][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 21:31:33.981][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:33.982][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 21:31:33.983][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 21:31:33.984][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:33.986][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:33.987][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-17 21:31:33.989][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:34.004][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-17 21:31:34.005][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:34.006][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 21:31:34.007][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:34.008][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 21:31:34.009][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:34.010][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 21:31:34.011][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-17 21:31:34.012][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 21:31:34.013][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:34.014][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-17 21:31:34.016][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 21:31:34.017][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:34.018][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:34.019][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:34.020][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 21:31:34.021][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:34.022][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:34.023][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 21:31:34.024][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:34.025][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:34.026][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 21:31:34.027][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:34.028][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 21:31:34.029][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 21:31:34.030][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:34.031][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:34.035][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 21:31:34.036][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.037][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[2025-10-17 21:31:34.038][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.054][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.059][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.063][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[2025-10-17 21:31:34.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.076][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.089][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[2025-10-17 21:31:34.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.102][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.105][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.110][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-17 21:31:34.114][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-17 21:31:34.116][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-17 21:31:34.117][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-17 21:31:34.119][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-17 21:31:34.120][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-17 21:31:34.122][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-17 21:31:34.123][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-17 21:31:34.124][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-17 21:31:34.126][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-17 21:31:34.127][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-17 21:31:34.128][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-17 21:31:34.129][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-17 21:31:34.131][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-17 21:31:34.132][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-17 21:31:34.134][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-17 21:31:34.135][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-17 21:31:34.136][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-17 21:31:34.138][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-17 21:31:34.139][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-17 21:31:34.140][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-17 21:31:34.142][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-17 21:31:34.143][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-17 21:31:34.144][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-17 21:31:34.146][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-17 21:31:34.147][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-17 21:31:34.148][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-17 21:31:34.150][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-17 21:31:34.151][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-17 21:31:34.153][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-17 21:31:34.154][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-17 21:31:34.155][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-17 21:31:34.157][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-17 21:31:34.158][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-17 21:31:34.159][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-17 21:31:34.161][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-17 21:31:34.162][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-17 21:31:34.163][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-17 21:31:34.165][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-17 21:31:34.166][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-17 21:31:34.167][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-17 21:31:34.169][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-17 21:31:34.170][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-17 21:31:34.171][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-17 21:31:34.173][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-17 21:31:34.174][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-17 21:31:34.176][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-17 21:31:34.177][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-17 21:31:34.178][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-17 21:31:34.180][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-17 21:31:34.181][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-17 21:31:34.182][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-17 21:31:34.184][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-17 21:31:34.185][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-17 21:31:34.186][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-17 21:31:34.188][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-17 21:31:34.189][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-17 21:31:34.190][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-17 21:31:34.192][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-17 21:31:34.193][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-17 21:31:34.194][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-17 21:31:34.196][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-17 21:31:34.197][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-17 21:31:34.198][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-17 21:31:34.200][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-17 21:31:34.201][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-17 21:31:34.202][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-17 21:31:34.204][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-17 21:31:34.205][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-17 21:31:34.207][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-17 21:31:34.208][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-17 21:31:34.210][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-17 21:31:34.211][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-17 21:31:34.213][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-17 21:31:34.214][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-17 21:31:34.215][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-17 21:31:34.217][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-17 21:31:34.219][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-17 21:31:34.227][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-17 21:31:34.228][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-17 21:31:34.229][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-17 21:31:34.231][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-17 21:31:34.232][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-17 21:31:34.238][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-17 21:31:34.239][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-17 21:31:34.243][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 21:31:34.243][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.245][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.246][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[2025-10-17 21:31:34.251][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.251][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:34.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:34.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.256][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[2025-10-17 21:31:34.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:34.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:34.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:34.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:34.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.269][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:34.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:34.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.272][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.274][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:34.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:34.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:34.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:34.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.286][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.DEBUG[2025-10-17 21:31:34.287][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:34.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:34.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.292][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[2025-10-17 21:31:34.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:34.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:34.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.298][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[2025-10-17 21:31:34.299][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:34.301][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:34.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.306][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:34.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:34.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.312][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[2025-10-17 21:31:34.313][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:34.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:34.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:34.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:34.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.326][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:34.328][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:34.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.333][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:34.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:34.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:34.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:34.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.344][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[2025-10-17 21:31:34.345][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:34.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:34.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:34.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:34.352][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-17 21:31:34.362][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-17 21:31:34.364][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:34.365][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-17 21:31:34.366][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:34.367][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 21:31:34.368][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:34.369][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 21:31:34.370][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:34.371][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-17 21:31:34.372][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-17 21:31:34.373][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 21:31:34.374][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:34.375][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-17 21:31:34.376][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 21:31:34.377][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-17 21:31:34.377][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-17 21:31:34.377][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-17 21:31:34.377][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-17 21:31:34.377][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-17 21:31:34.377][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-17 21:31:34.377][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-17 21:31:34.377][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-17 21:31:34.377][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-17 21:31:34.377][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-17 21:31:34.377][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-17 21:31:34.379][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:34.380][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 21:31:34.380][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 21:31:34.380][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 21:31:34.381][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-17 21:31:34.381][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:34.382][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:34.383][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 21:31:34.384][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:34.385][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:34.386][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 21:31:34.387][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-17 21:31:34.387][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-17 21:31:34.388][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 21:31:34.389][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 21:31:34.390][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:34.391][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-17 21:31:34.391][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-17 21:31:34.397][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-17 21:31:34.398][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-17 21:31:34.400][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-17 21:31:34.401][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-17 21:31:34.403][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-17 21:31:34.404][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-17 21:31:34.429][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-17 21:31:34.447][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-17 21:31:34.468][biodb::testThat]
biodb.INFO [2025-10-17 21:31:34.469][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-10-17 21:31:34.470][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:34.471][biodb::testThat]
biodb.TRACE[2025-10-17 21:31:34.474][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-10-17 21:31:34.476][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:34.479][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:34.487][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:34.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:34.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:34.502][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:34.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:34.503][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:34.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:34.513][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.515][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.516][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.534][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:34.535][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:34.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.537][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.565][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:34.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:34.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.570][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:34.571][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:34.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.573][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.575][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:34.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:34.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.579][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:34.581][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:34.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.583][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.584][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:34.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:34.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.588][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:34.589][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:34.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.591][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.593][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:34.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:34.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.597][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:34.598][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:34.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.600][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.601][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:34.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:34.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.605][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:34.606][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:34.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.608][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.609][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:34.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:34.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.613][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:34.614][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:34.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.616][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:34.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:34.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.622][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:34.623][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:34.624][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.625][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.626][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:34.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:34.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.630][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:34.631][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:34.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.633][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.634][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:34.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:34.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.638][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:34.639][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:34.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.641][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.642][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:34.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:34.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.646][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.650][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.654][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:34.727][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-10-17 21:31:34.730][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:34.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:34.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.734][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:34.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:34.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.763][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:34.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:34.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.767][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:34.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:34.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:34.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:34.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:34.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:34.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.779][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-17 21:31:34.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-17 21:31:34.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.783][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-17 21:31:34.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-17 21:31:34.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.787][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-17 21:31:34.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-17 21:31:34.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.791][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-17 21:31:34.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-17 21:31:34.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.851][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.881][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.882][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.883][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:34.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:34.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.897][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.909][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.910][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.912][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:34.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.926][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:34.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:34.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.931][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:34.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:34.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.935][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:34.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:34.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.939][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:34.940][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:34.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.942][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.943][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:34.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:34.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.955][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:34.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:34.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.959][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:34.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:34.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.963][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:34.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:34.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.967][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:34.968][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:34.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.970][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.971][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:34.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:34.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.982][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:34.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:34.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.986][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:34.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:34.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:34.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:34.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.993][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:34.994][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:34.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:34.996][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:34.997][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:34.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:34.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:35.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:35.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.015][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:35.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:35.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:35.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:35.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.023][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:35.024][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:35.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.026][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:35.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:35.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.088][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:35.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:35.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.092][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:35.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:35.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.096][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:35.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:35.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.101][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:35.102][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:35.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.103][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.104][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:35.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:35.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.116][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-17 21:31:35.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:35.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.120][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-17 21:31:35.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:35.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.124][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-17 21:31:35.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:35.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.128][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-17 21:31:35.129][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:35.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.131][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.132][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-17 21:31:35.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:35.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.144][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:35.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:35.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.149][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:35.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:35.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.153][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:35.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:35.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.157][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:35.158][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:35.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.160][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.160][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:35.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:35.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.172][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:35.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:35.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.176][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:35.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:35.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.180][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:35.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:35.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.184][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:35.185][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:35.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.187][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.188][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:35.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:35.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.200][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:35.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:35.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.204][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:35.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:35.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.208][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:35.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:35.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.212][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:35.213][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:35.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.215][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.216][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:35.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:35.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.229][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:35.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:35.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.233][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:35.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:35.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.237][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:35.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:35.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.241][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:35.242][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:35.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.244][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.245][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:35.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:35.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.257][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:35.258][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:35.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.260][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.264][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:35.265][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:35.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.267][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.277][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:35.278][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:35.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.280][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.285][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:35.286][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:35.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.288][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.292][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:35.293][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:35.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.295][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.299][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:35.300][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:35.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.302][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.307][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:35.308][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:35.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.310][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.314][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:35.315][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:35.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.317][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.321][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-17 21:31:35.323][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:35.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.325][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.329][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:35.330][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:35.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.332][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.336][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:35.338][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:35.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.340][ef$get] fields variable is a list.
biodb.INFO [2025-10-17 21:31:35.347][biodb::testThat]
biodb.INFO [2025-10-17 21:31:35.348][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-10-17 21:31:35.349][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:35.350][biodb::testThat]
biodb.DEBUG[2025-10-17 21:31:35.364][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-10-17 21:31:35.368][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:35.372][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:35.378][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-10-17 21:31:35.380][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:35.404][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:35.406][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:35.408][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:35.408][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:35.409][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:35.414][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:35.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:35.416][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:35.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:35.420][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:35.421][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:35.422][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.423][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:35.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:35.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.446][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:35.447][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:35.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.449][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.450][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:35.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:35.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.455][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:35.462][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:35.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.464][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.465][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:35.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:35.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.469][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:35.471][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:35.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.472][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.474][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:35.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:35.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.478][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:35.479][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:35.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.481][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.482][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:35.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:35.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.486][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:35.488][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:35.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.489][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.491][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:35.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:35.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.495][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:35.496][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:35.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.498][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.499][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:35.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:35.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.503][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:35.505][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:35.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.506][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:35.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:35.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.512][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:35.513][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:35.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.515][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.517][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:35.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:35.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.521][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:35.522][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:35.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.524][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.525][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:35.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:35.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.530][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:35.531][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:35.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.532][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.534][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:35.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:35.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.538][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:35.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:35.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.542][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:35.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:35.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:35.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:35.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:35.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:35.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:35.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:35.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:35.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:35.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:35.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:35.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:35.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:35.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:35.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:35.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:35.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:35.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:35.579][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-10-17 21:31:35.580][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-10-17 21:31:35.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-10-17 21:31:35.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-10-17 21:31:35.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-10-17 21:31:35.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.588][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-10-17 21:31:35.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-10-17 21:31:35.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-17 21:31:35.600][biodb::testThat]
biodb.INFO [2025-10-17 21:31:35.602][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-10-17 21:31:35.603][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:35.604][biodb::testThat]
biodb.TRACE[2025-10-17 21:31:35.607][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:35.608][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:35.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.610][ef$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:35.611][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-10-17 21:31:35.639][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:35.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:35.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.645][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:35.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:35.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.649][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:35.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:35.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:35.662][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-10-17 21:31:35.668][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-17 21:31:35.689][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:35.695][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-17 21:31:35.697][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-17 21:31:35.717][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 [2025-10-17 21:31:35.751][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:35.755][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-17 21:31:35.756][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:35.758][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-10-17 21:31:35.771][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:35.773][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:35.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.775][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.776][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:35.777][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:35.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.779][ef$get] fields variable is a list.
biodb.INFO [2025-10-17 21:31:35.783][biodb::testThat]
biodb.INFO [2025-10-17 21:31:35.784][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-10-17 21:31:35.786][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:35.788][biodb::testThat]
biodb.TRACE[2025-10-17 21:31:35.825][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:35.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:35.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.831][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:35.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:35.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.837][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:35.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:35.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 21:31:35.928][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 [2025-10-17 21:31:35.931][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:35.935][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-17 21:31:35.936][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-17 21:31:35.951][biodb::testThat]
biodb.INFO [2025-10-17 21:31:35.952][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-10-17 21:31:35.953][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:35.954][biodb::testThat]
biodb.TRACE[2025-10-17 21:31:35.977][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:35.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:35.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.981][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:35.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:35.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.985][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:35.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:35.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.989][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:35.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:35.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:35.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:35.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:35.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:35.997][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:35.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:35.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:36.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:36.001][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-17 21:31:36.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-17 21:31:36.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:36.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:36.005][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-17 21:31:36.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-17 21:31:36.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:36.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:36.009][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-17 21:31:36.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-17 21:31:36.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:36.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:36.012][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-17 21:31:36.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-17 21:31:36.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:36.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:36.034][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:36.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:36.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:36.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:36.038][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:36.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:36.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:36.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:36.042][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:36.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:36.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:36.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:36.046][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:36.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:36.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:36.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:36.050][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:36.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:36.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:36.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:36.059][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:36.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:36.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:36.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:36.062][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-17 21:31:36.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-17 21:31:36.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:36.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:36.066][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-17 21:31:36.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-17 21:31:36.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:36.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:36.070][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-17 21:31:36.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-17 21:31:36.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:36.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:36.074][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-17 21:31:36.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-17 21:31:36.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:36.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-17 21:31:36.083][biodb::testThat]
biodb.INFO [2025-10-17 21:31:36.083][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-10-17 21:31:36.084][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:36.085][biodb::testThat]
biodb.INFO [2025-10-17 21:31:36.093][biodb::testThat]
biodb.INFO [2025-10-17 21:31:36.094][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-10-17 21:31:36.095][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:36.096][biodb::testThat]
biodb.INFO [2025-10-17 21:31:36.102][biodb::testThat]
biodb.INFO [2025-10-17 21:31:36.103][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-10-17 21:31:36.104][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:36.105][biodb::testThat]
biodb.DEBUG[2025-10-17 21:31:36.109][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-10-17 21:31:37.012][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-10-17 21:31:37.604][biodb::testThat]
biodb.INFO [2025-10-17 21:31:37.606][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-10-17 21:31:37.608][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:37.610][biodb::testThat]
biodb.TRACE[2025-10-17 21:31:37.622][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:37.624][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:37.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:37.627][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:37.629][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:37.630][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:37.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:37.633][ef$get] fields variable is a list.
biodb.INFO [2025-10-17 21:31:37.635][biodb::testThat]
biodb.INFO [2025-10-17 21:31:37.637][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-10-17 21:31:37.638][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:37.639][biodb::testThat]
biodb.TRACE[2025-10-17 21:31:37.653][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:37.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:37.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:37.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:37.658][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:37.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:37.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:37.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:37.662][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:37.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:37.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:37.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 21:31:37.784][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 [2025-10-17 21:31:37.787][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:37.791][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-17 21:31:37.792][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-17 21:31:37.877][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 [2025-10-17 21:31:37.880][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:37.884][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-17 21:31:37.885][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-17 21:31:37.900][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-17 21:31:37.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-17 21:31:37.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:37.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:37.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:37.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:37.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:37.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:37.921][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:37.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:37.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:37.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:37.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:37.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:37.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:37.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:37.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:37.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:37.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:37.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:37.933][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:37.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:37.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:37.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 21:31:37.944][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 [2025-10-17 21:31:37.947][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:37.949][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-17 21:31:37.950][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:37.953][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:37.954][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:37.955][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:37.960][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:37.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:37.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:37.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:37.967][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-10-17 21:31:38.052][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:38.054][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:38.058][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-10-17 21:31:38.059][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:38.060][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:38.062][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:38.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:38.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:38.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:38.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:38.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:38.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:38.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:38.076][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.077][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.079][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.080][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.084][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:38.085][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:38.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.087][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.088][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:38.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:38.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.092][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:38.093][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:38.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.095][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.097][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:38.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:38.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.101][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:38.102][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:38.103][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.104][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.105][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:38.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:38.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.109][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:38.110][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:38.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.112][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.113][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:38.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:38.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.118][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:38.125][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:38.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.127][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.128][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:38.129][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.131][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.132][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:38.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.136][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:38.137][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:38.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.139][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.140][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:38.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:38.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.144][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:38.145][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:38.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.147][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:38.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:38.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.153][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:38.154][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:38.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.155][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.157][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:38.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:38.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.161][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:38.162][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:38.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.164][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.165][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:38.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:38.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:38.210][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-10-17 21:31:38.221][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.229][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 21:31:38.233][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:38.236][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:38.239][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-17 21:31:38.240][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:38.255][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:38.256][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:38.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:38.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:38.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:38.264][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:38.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:38.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.274][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:38.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:38.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:38.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:38.291][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:38.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:38.293][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:38.294][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:38.295][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-10-17 21:31:38.296][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:38.298][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:38.301][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-10-17 21:31:38.302][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:38.304][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:38.305][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:38.306][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:38.307][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:38.308][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:38.313][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:38.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:38.315][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:38.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:38.318][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.319][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.320][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.321][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.326][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:38.327][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:38.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.329][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.331][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:38.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:38.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.335][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:38.336][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:38.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.338][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.339][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:38.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:38.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.343][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:38.344][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:38.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.346][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.348][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:38.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:38.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.352][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:38.353][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:38.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.356][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.357][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:38.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:38.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.362][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:38.363][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:38.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.365][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.366][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:38.368][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.370][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.371][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:38.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.376][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:38.377][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:38.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.379][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.380][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:38.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:38.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.385][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:38.386][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:38.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.387][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.389][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:38.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:38.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.393][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:38.394][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:38.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.396][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.397][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:38.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:38.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.401][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:38.402][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:38.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.404][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.405][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:38.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:38.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.409][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.417][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.421][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:38.448][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-10-17 21:31:38.449][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.454][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 21:31:38.487][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:38.489][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:38.493][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-17 21:31:38.494][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:38.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:38.498][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:38.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:38.503][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:38.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:38.505][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:38.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:38.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.515][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:38.519][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:38.520][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:38.521][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:38.526][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:38.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:38.527][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:38.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:38.530][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-10-17 21:31:38.531][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:38.532][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:38.535][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-10-17 21:31:38.536][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:38.538][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:38.539][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:38.541][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:38.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:38.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:38.548][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:38.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:38.550][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:38.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:38.554][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.555][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.557][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.563][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:38.564][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:38.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.566][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.567][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:38.568][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:38.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.570][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.572][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:38.573][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:38.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.574][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.576][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:38.577][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:38.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.579][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.580][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:38.581][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:38.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.583][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.584][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:38.585][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.587][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.588][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:38.589][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:38.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.591][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.593][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:38.594][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:38.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.595][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.597][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:38.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:38.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.601][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:38.602][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:38.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.604][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.605][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:38.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:38.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.609][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:38.610][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:38.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.612][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.625][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.644][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:38.659][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-10-17 21:31:38.660][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.664][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.669][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.677][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:38.681][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:38.682][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:38.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:38.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:38.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:38.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:38.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:38.691][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-10-17 21:31:38.692][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:38.694][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:38.698][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-10-17 21:31:38.699][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:38.701][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:38.703][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:38.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:38.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:38.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:38.717][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:38.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:38.720][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:38.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:38.726][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.728][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.731][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.740][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:38.742][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:38.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.745][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.748][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:38.749][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:38.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.752][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.753][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:38.754][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:38.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.756][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.758][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:38.759][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:38.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.761][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.762][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:38.763][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:38.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.765][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.767][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:38.768][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.770][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.771][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:38.772][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:38.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.776][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.778][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:38.780][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:38.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.783][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.785][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:38.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:38.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.789][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:38.790][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:38.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.792][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.793][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:38.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:38.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.799][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:38.801][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:38.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.804][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.815][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:38.857][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-10-17 21:31:38.858][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.874][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:38.879][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:38.880][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:38.881][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:38.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:38.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:38.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:38.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:38.890][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-10-17 21:31:38.891][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:38.893][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:38.897][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-10-17 21:31:38.898][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:38.899][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:38.900][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:38.902][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:38.903][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:38.904][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:38.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:38.910][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:38.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:38.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:38.915][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.916][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.918][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.924][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:38.925][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:38.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.927][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.928][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:38.930][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:38.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.932][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.933][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:38.934][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:38.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.936][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.938][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:38.939][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:38.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.941][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.942][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:38.943][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:38.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.945][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.947][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:38.948][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:38.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.950][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.951][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:38.952][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:38.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.954][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.955][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:38.956][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:38.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.958][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.960][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:38.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:38.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.964][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:38.965][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:38.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.967][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.969][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:38.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:38.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.973][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:38.974][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:38.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.976][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.982][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.986][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:38.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:38.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:38.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:38.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:38.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.010][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:39.028][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-10-17 21:31:39.029][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.037][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:39.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:39.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:39.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:39.056][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:39.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:39.058][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:39.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:39.060][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-10-17 21:31:39.061][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:39.062][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:39.068][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-10-17 21:31:39.069][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:39.070][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:39.071][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:39.073][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:39.074][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:39.075][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:39.080][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:39.081][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:39.082][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:39.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:39.085][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.086][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.088][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.089][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.094][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:39.095][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:39.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.097][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.098][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:39.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:39.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.102][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:39.104][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:39.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.106][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.107][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:39.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:39.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.111][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:39.113][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:39.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.114][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.116][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:39.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:39.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.120][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:39.121][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:39.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.123][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.124][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:39.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:39.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.128][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:39.129][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:39.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.131][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.133][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:39.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:39.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.136][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:39.138][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.139][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.141][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:39.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.145][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:39.146][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:39.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.147][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:39.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:39.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.153][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:39.154][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:39.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.156][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.157][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:39.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:39.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.161][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:39.162][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:39.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.164][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.165][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:39.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:39.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.169][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:39.170][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:39.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.172][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.173][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:39.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:39.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.181][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.185][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.217][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:39.221][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-10-17 21:31:39.222][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.226][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:39.234][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:39.235][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:39.236][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:39.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:39.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:39.242][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:39.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:39.245][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-10-17 21:31:39.246][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:39.247][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:39.252][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-10-17 21:31:39.253][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:39.254][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:39.255][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:39.257][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:39.258][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:39.259][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:39.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:39.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:39.267][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:39.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:39.270][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.271][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.273][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.279][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:39.280][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:39.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.282][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.284][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:39.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:39.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.288][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:39.289][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:39.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.291][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.293][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:39.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:39.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.297][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:39.298][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:39.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.299][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.301][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:39.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:39.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.305][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:39.306][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:39.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.308][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.309][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:39.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:39.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.313][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:39.314][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:39.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.316][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.317][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:39.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:39.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.321][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:39.323][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.324][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.326][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:39.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.330][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:39.331][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:39.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.333][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:39.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:39.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.338][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:39.339][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:39.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.341][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.342][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:39.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:39.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.346][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:39.347][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:39.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.349][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.351][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:39.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:39.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.355][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:39.356][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:39.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.358][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.359][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:39.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:39.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.371][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:39.411][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-10-17 21:31:39.412][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.420][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:39.424][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:39.425][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:39.426][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:39.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:39.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:39.433][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:39.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:39.435][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-10-17 21:31:39.436][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:39.438][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:39.442][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-10-17 21:31:39.444][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:39.445][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:39.446][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:39.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:39.449][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:39.450][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:39.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:39.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:39.457][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:39.458][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:39.461][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.462][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.464][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.470][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:39.471][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:39.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.472][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.474][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:39.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:39.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.478][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:39.479][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:39.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.481][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.482][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:39.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:39.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.486][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:39.487][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:39.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.489][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.490][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:39.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:39.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.494][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:39.495][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:39.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.497][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.498][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:39.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:39.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.502][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:39.503][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:39.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.505][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.506][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:39.507][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.509][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.510][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:39.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.514][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:39.515][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:39.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.517][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:39.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:39.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.522][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:39.523][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:39.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.525][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.527][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:39.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:39.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.531][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:39.532][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:39.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.541][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.542][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:39.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:39.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.546][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:39.547][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:39.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.549][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.550][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:39.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:39.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:39.593][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-10-17 21:31:39.594][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:39.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:39.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:39.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:39.615][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:39.616][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:39.617][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:39.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:39.619][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-10-17 21:31:39.620][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:39.622][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:39.626][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-10-17 21:31:39.627][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:39.629][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:39.630][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:39.632][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:39.633][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:39.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:39.639][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:39.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:39.640][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:39.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:39.644][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.645][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.647][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.652][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:39.654][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:39.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.655][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.657][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:39.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:39.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.661][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:39.662][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:39.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.664][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.665][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:39.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:39.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.669][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:39.670][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:39.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.672][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.674][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:39.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:39.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.678][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:39.679][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:39.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.680][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.682][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:39.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:39.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.686][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:39.687][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:39.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.688][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.690][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:39.691][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.693][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.694][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:39.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.698][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:39.699][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:39.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.701][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.702][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:39.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:39.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.714][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:39.715][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:39.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.717][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.719][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:39.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:39.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.723][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:39.724][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:39.725][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.725][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.727][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:39.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:39.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.731][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:39.732][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:39.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.733][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.735][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:39.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:39.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.739][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:39.781][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-10-17 21:31:39.782][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.791][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:39.795][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:39.796][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:39.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:39.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:39.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:39.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:39.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:39.807][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-10-17 21:31:39.808][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:39.809][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:39.813][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-10-17 21:31:39.814][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:39.816][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:39.817][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:39.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:39.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:39.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:39.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:39.826][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:39.827][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:39.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:39.830][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.832][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.833][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.839][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:39.840][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:39.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.842][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.843][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:39.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:39.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.847][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:39.848][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:39.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.850][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.852][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:39.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:39.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.856][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:39.857][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:39.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.858][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.860][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:39.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:39.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.864][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:39.865][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:39.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.867][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.868][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:39.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:39.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.872][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:39.873][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:39.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.875][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.876][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:39.877][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.886][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.887][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.888][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:39.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.890][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.892][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:39.893][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:39.894][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.895][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:39.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:39.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.901][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:39.902][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:39.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.903][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.905][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:39.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:39.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.909][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:39.910][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:39.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.911][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.913][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:39.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:39.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.917][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:39.918][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:39.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.920][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.921][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:39.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:39.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:39.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.945][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.953][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:39.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:39.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:39.966][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-10-17 21:31:39.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.971][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:39.975][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:39.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:39.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:39.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:39.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:39.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:39.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:39.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:39.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:39.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:39.990][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-10-17 21:31:39.991][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:39.992][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:39.996][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-10-17 21:31:39.997][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:39.998][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:40.000][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:40.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:40.002][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:40.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:40.008][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:40.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:40.010][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:40.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:40.013][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.014][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.016][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.017][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.019][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.020][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.021][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:40.022][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:40.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.024][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.026][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:40.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:40.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.030][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:40.031][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:40.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.032][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.034][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:40.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:40.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.038][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:40.039][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:40.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.041][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.042][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:40.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:40.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.046][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:40.047][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:40.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.055][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.056][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:40.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:40.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.060][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:40.061][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:40.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.063][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.064][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:40.065][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.067][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.068][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:40.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.072][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.073][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.075][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.080][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:40.081][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:40.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.083][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.084][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:40.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:40.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.089][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:40.090][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:40.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.092][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.093][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:40.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:40.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.097][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:40.098][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:40.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.100][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.101][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:40.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:40.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.118][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:40.147][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-10-17 21:31:40.148][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:40.160][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:40.161][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:40.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:40.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:40.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:40.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:40.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:40.170][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-10-17 21:31:40.171][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:40.172][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:40.176][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-10-17 21:31:40.177][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:40.179][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:40.180][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:40.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:40.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:40.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:40.188][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:40.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:40.189][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:40.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:40.192][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.193][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.195][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.200][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:40.201][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:40.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.203][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.204][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:40.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:40.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.208][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:40.209][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:40.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.211][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.212][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:40.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:40.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.222][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:40.223][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:40.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.225][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.226][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:40.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:40.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.230][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:40.231][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:40.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.232][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.234][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:40.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:40.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.237][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:40.238][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:40.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.240][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.241][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:40.242][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.244][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.245][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:40.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.249][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.250][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.252][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.257][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:40.258][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:40.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.260][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.262][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:40.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:40.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.266][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:40.267][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:40.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.269][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.270][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:40.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:40.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.274][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:40.275][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:40.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.277][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.278][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:40.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:40.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.308][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.312][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.316][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:40.324][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-10-17 21:31:40.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.333][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:40.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:40.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:40.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:40.343][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:40.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:40.345][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:40.346][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:40.347][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-10-17 21:31:40.348][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:40.349][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:40.352][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-10-17 21:31:40.353][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:40.354][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:40.355][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:40.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:40.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:40.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:40.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:40.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:40.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:40.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:40.369][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.370][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.372][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.377][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:40.409][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:40.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.411][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.413][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:40.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:40.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.417][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:40.418][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:40.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.419][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.421][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:40.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:40.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.424][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:40.426][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:40.426][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.427][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.429][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:40.430][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:40.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.431][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.433][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:40.434][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:40.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.435][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.437][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:40.438][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.440][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.441][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:40.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.445][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.446][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.448][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.449][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.453][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:40.454][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:40.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.456][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.457][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:40.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:40.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.461][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:40.462][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:40.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.464][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.466][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:40.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:40.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.470][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:40.471][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:40.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.473][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:40.513][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-10-17 21:31:40.514][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:40.526][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:40.527][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:40.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:40.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:40.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:40.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:40.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:40.536][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-10-17 21:31:40.538][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:40.539][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:40.542][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-10-17 21:31:40.543][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:40.544][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:40.545][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:40.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:40.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:40.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:40.553][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:40.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:40.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:40.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:40.559][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.560][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.562][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.563][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.568][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:40.569][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:40.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.577][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.579][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:40.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:40.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.583][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:40.584][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:40.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.586][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.587][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:40.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:40.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.591][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:40.592][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:40.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.594][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.595][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:40.596][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:40.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.598][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.599][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:40.600][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:40.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.602][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.603][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:40.604][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.606][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.607][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:40.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.611][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.612][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.614][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.619][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:40.620][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:40.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.622][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.623][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:40.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:40.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.627][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:40.629][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:40.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.631][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.632][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:40.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:40.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.636][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:40.637][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:40.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.639][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.641][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:40.680][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-10-17 21:31:40.681][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.688][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:40.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:40.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:40.694][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:40.699][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:40.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:40.701][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:40.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:40.703][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-10-17 21:31:40.704][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:40.705][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:40.709][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-10-17 21:31:40.710][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:40.711][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:40.712][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:40.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:40.715][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:40.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:40.721][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:40.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:40.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:40.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:40.726][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.727][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.728][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.729][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.736][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:40.737][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:40.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.739][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.747][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:40.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:40.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.752][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:40.753][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:40.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.754][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.756][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:40.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:40.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.760][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:40.761][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:40.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.762][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.764][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:40.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:40.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.767][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:40.768][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:40.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.770][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.771][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:40.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:40.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.775][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:40.776][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:40.777][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.778][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.779][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:40.780][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.782][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.784][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:40.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.788][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.789][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.791][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.796][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:40.797][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:40.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.799][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.800][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:40.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:40.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.805][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:40.806][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:40.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.808][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.809][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:40.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:40.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.813][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:40.814][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:40.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.816][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.818][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:40.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:40.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.822][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.830][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:40.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:40.861][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-10-17 21:31:40.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:40.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:40.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:40.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:40.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:40.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:40.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:40.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:40.884][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-10-17 21:31:40.885][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:40.886][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:40.891][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-10-17 21:31:40.892][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:40.894][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:40.895][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:40.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:40.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:40.899][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:40.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:40.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:40.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:40.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:40.910][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.917][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.919][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.921][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:40.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:40.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.925][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:40.926][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:40.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.927][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.929][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:40.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:40.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.933][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:40.934][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:40.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.935][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.937][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:40.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:40.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.940][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:40.941][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:40.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.943][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.945][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:40.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:40.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.949][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:40.950][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:40.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.951][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.953][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:40.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:40.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.957][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:40.958][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:40.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.960][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.961][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:40.962][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.964][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.965][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:40.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:40.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.969][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.970][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.972][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:40.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.978][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:40.979][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:40.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.981][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.982][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:40.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:40.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.987][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:40.988][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:40.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.990][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.991][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:40.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:40.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:40.995][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:40.997][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:40.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:40.998][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.000][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:41.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:41.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.035][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:41.043][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-10-17 21:31:41.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.048][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:41.055][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:41.056][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:41.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:41.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:41.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:41.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:41.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:41.066][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-10-17 21:31:41.067][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:41.069][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:41.073][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-10-17 21:31:41.075][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:41.076][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:41.077][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:41.079][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:41.086][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:41.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:41.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:41.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:41.094][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:41.095][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.TRACE[2025-10-17 21:31:41.097][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.098][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.100][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.105][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:41.106][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:41.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.108][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.109][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:41.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:41.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.113][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:41.114][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:41.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.116][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.118][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:41.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:41.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.121][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:41.122][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:41.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.124][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.126][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:41.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:41.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.130][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:41.131][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:41.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.133][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.134][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:41.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:41.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.138][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:41.139][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:41.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.141][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.143][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:41.144][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.146][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.147][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:41.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.152][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:41.153][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:41.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.156][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:41.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:41.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.162][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:41.163][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:41.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.165][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.167][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:41.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:41.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.171][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:41.172][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:41.173][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.174][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.175][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:41.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:41.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.179][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:41.180][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:41.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.182][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.183][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:41.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:41.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.191][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.199][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:41.227][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-10-17 21:31:41.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.233][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.237][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:41.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:41.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:41.244][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:41.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:41.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:41.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:41.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:41.261][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-10-17 21:31:41.262][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:41.264][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:41.268][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-10-17 21:31:41.269][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:41.270][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:41.271][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:41.273][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:41.274][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:41.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:41.280][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:41.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:41.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:41.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:41.285][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.286][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.288][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.294][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:41.295][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:41.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.297][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.298][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:41.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:41.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.302][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:41.303][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:41.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.305][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.306][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:41.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:41.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.310][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:41.312][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:41.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.313][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.315][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:41.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:41.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.320][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:41.321][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:41.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.323][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.324][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:41.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:41.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.329][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:41.330][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:41.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.332][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.333][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:41.334][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.336][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.338][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:41.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.342][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:41.343][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:41.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.345][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:41.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:41.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.351][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:41.352][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:41.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.354][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.355][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:41.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:41.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.359][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:41.360][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:41.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.362][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.364][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:41.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:41.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.368][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:41.369][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:41.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.371][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.372][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:41.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:41.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.380][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.404][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.408][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:41.417][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-10-17 21:31:41.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:41.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:41.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:41.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:41.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:41.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:41.447][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:41.448][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:41.449][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-10-17 21:31:41.450][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:41.451][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:41.456][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-10-17 21:31:41.457][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:41.458][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:41.459][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:41.461][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:41.462][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:41.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:41.468][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:41.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:41.470][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:41.471][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.TRACE[2025-10-17 21:31:41.473][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.474][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.476][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.482][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:41.483][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:41.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.485][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.486][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:41.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:41.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.490][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:41.491][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:41.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.493][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.495][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:41.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:41.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.499][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:41.500][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:41.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.503][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.504][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:41.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:41.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.508][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:41.510][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:41.511][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.511][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.513][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:41.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:41.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.517][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:41.518][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:41.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.520][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.522][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:41.523][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.525][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.526][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:41.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.530][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:41.531][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:41.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.533][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:41.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:41.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.538][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:41.539][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:41.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.541][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.543][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:41.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:41.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.547][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:41.548][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:41.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.549][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.551][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:41.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:41.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.555][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:41.556][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:41.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.558][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.559][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:41.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:41.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.571][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.599][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:41.608][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-10-17 21:31:41.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.613][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:41.621][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:41.622][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:41.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:41.627][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:41.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:41.629][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:41.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:41.631][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-10-17 21:31:41.632][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:41.633][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:41.637][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-10-17 21:31:41.638][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:41.639][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:41.640][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:41.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:41.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:41.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:41.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:41.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:41.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:41.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:41.653][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.654][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.656][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.661][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:41.662][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:41.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.664][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.666][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:41.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:41.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.670][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:41.671][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:41.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.673][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.674][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:41.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:41.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.679][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:41.680][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:41.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.682][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.683][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:41.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:41.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.687][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:41.688][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:41.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.690][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.691][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:41.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:41.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.695][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:41.696][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:41.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.698][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.699][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:41.700][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.702][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.703][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:41.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.707][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:41.708][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:41.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.710][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:41.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:41.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.716][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:41.717][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:41.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.718][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.720][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:41.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:41.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.724][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:41.725][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:41.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.727][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.728][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:41.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:41.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.732][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:41.733][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:41.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.735][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.736][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:41.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:41.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.740][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.752][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:41.787][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-10-17 21:31:41.788][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.791][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:41.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:41.800][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:41.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:41.806][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:41.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:41.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:41.808][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:41.809][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-10-17 21:31:41.811][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:41.812][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:41.816][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-10-17 21:31:41.817][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:41.818][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:41.819][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:41.821][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:41.822][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:41.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:41.828][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:41.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:41.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:41.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:41.833][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.834][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.836][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.842][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:41.843][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:41.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.845][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.846][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:41.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:41.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.851][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:41.852][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:41.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.854][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.856][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:41.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:41.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.860][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:41.861][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:41.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.863][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.864][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:41.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:41.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.868][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:41.869][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:41.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.871][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.872][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:41.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:41.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.876][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:41.877][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:41.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.879][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.880][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:41.881][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.882][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.883][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.884][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:41.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.889][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:41.890][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:41.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.892][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:41.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:41.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.897][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:41.898][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:41.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.900][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.902][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:41.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:41.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.906][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:41.907][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:41.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.909][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.910][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:41.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:41.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.914][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:41.915][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:41.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.917][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.918][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:41.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:41.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.922][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.927][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:41.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.946][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.950][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:41.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:41.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:41.969][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-10-17 21:31:41.970][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:41.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:41.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:41.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 21:31:41.998][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:42.001][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:42.005][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-17 21:31:42.006][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:42.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.011][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.024][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.028][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.038][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.040][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.050][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.063][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.064][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.071][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.072][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.077][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.088][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.093][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.094][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.095][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.100][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.102][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.104][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.115][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.123][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.127][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.132][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.140][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.142][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.150][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.154][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.155][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.161][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.162][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.165][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.173][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.177][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.178][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.184][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.186][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.189][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.193][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.202][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.203][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.207][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.209][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.219][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.223][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.224][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.229][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.233][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.237][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.241][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.246][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.246][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.252][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.255][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.259][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.267][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.268][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.280][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.295][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.296][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.297][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.307][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.310][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.312][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.313][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.323][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.327][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.338][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.341][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.355][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.356][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.357][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.372][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.377][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.381][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.382][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.406][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.407][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.408][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.415][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.431][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.432][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.433][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.447][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.457][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.458][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.464][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.489][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.493][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.499][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.512][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.520][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.521][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.522][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.527][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.528][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.529][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.531][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.535][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.539][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 21:31:42.603][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:42.606][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:42.610][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-10-17 21:31:42.611][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-17 21:31:42.615][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:42.617][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:42.620][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-10-17 21:31:42.621][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:42.623][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:42.634][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-10-17 21:31:42.635][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:42.636][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:42.642][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-10-17 21:31:42.643][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:42.644][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:42.645][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:42.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.661][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.663][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.666][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:42.667][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:42.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.669][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:42.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:42.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.674][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:42.675][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:42.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.677][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.678][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:42.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:42.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.682][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:42.683][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:42.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.685][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.687][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:42.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:42.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.691][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:42.692][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:42.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.694][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.695][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:42.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:42.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.699][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:42.700][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:42.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.702][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.703][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:42.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:42.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.707][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:42.708][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:42.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.710][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.712][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:42.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:42.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.716][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:42.717][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.718][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.719][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.720][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:42.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.725][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.726][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.728][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.729][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.733][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:42.734][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:42.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.736][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.738][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:42.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:42.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.742][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:42.743][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:42.744][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.745][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.746][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:42.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:42.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.750][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:42.751][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:42.752][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.752][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.754][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:42.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:42.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.758][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:42.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:42.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.762][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:42.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:42.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:42.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:42.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:42.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:42.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:42.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:42.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:42.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:42.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:42.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:42.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:42.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:42.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:42.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:42.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.793][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:42.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:42.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.796][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-10-17 21:31:42.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.826][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.828][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:42.840][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.841][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.846][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.847][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.848][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:42.850][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-10-17 21:31:42.851][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:42.853][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:42.857][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-10-17 21:31:42.858][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:42.859][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:42.860][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:42.862][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:42.863][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:42.863][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:42.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:42.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:42.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:42.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:42.873][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:42.874][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:42.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.876][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.877][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:42.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:42.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.882][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:42.883][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:42.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.885][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.886][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:42.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:42.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.891][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:42.892][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:42.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.894][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.895][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:42.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:42.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.900][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:42.901][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:42.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.903][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.904][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:42.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:42.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.908][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:42.909][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:42.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.911][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.913][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:42.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:42.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.916][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:42.917][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:42.918][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.919][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.921][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:42.922][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.923][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.925][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:42.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:42.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.929][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.930][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.931][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:42.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.937][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:42.938][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:42.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.940][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.941][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:42.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:42.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.945][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:42.946][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:42.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.948][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.949][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:42.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:42.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.953][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:42.954][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:42.955][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.956][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.957][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:42.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:42.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:42.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:42.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:42.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:42.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:42.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:42.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.973][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:42.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:42.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:42.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:42.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.982][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:42.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:42.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:42.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:42.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:42.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:42.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:42.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:43.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:43.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:43.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.006][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:43.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:43.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.009][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-10-17 21:31:43.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 21:31:43.040][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:43.043][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:43.046][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-17 21:31:43.047][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:43.050][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.059][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.061][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.062][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.063][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.077][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.078][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.084][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.085][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.086][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.087][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.088][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.092][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.104][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.114][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.116][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.122][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.126][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.137][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.144][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.149][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.168][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.176][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.184][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.186][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.204][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.206][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.208][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.215][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.220][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.221][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.222][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.227][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.229][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.235][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.239][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.244][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.245][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.254][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.266][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.267][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.267][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.272][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.274][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.280][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.288][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.289][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.289][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.294][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.296][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.298][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.318][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.352][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.360][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.361][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.368][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.382][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.383][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.391][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.397][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.406][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.416][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.427][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.428][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.434][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.435][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.436][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.437][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.438][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.442][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.446][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.450][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.451][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.452][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.457][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.459][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.461][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.465][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.480][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.482][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.489][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.504][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.505][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.510][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.512][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.514][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.517][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.527][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.532][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.534][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 21:31:43.566][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:43.569][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:43.572][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-17 21:31:43.574][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:43.577][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.584][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.586][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.592][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.596][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.606][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.622][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.626][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.630][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.636][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.640][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.644][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.671][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.675][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.677][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.679][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.683][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.691][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.699][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.705][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.707][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.710][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.722][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.723][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.729][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.731][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.733][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.737][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.746][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.748][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.753][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.768][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.777][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.779][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.797][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.799][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.821][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.823][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.837][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.868][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.875][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.876][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.885][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.889][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.896][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.898][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.904][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.908][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.913][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.914][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.919][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.921][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.935][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.936][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.943][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.958][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.959][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.964][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.966][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.966][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:43.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:43.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:43.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:43.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:43.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:43.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:43.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:43.991][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:43.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:43.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:43.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:44.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:44.015][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:44.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:44.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:44.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:44.022][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:44.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:44.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.028][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:44.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:44.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:44.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:44.042][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:44.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:44.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:44.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:44.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:44.057][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:44.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:44.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:44.064][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:44.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:44.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:44.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:44.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.072][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.076][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.094][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-17 21:31:44.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-17 21:31:44.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-17 21:31:44.104][biodb::testThat]
biodb.INFO [2025-10-17 21:31:44.105][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-10-17 21:31:44.106][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:44.107][biodb::testThat]
biodb.TRACE[2025-10-17 21:31:44.110][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-17 21:31:44.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-17 21:31:44.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.118][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.122][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.126][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:44.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:44.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:44.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:44.138][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:44.139][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:44.140][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:44.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 21:31:44.144][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:44.146][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:44.148][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-17 21:31:44.149][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:44.152][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:44.153][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:44.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:44.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:44.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:44.160][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:44.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:44.163][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.178][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 21:31:44.183][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:44.186][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:44.188][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-17 21:31:44.189][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:44.191][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:44.192][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:44.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:44.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:44.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:44.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:44.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:44.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:44.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:44.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:44.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:44.220][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:44.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:44.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:44.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:44.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.228][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:44.236][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-17 21:31:44.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:44.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:44.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:44.245][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:44.246][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:44.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:44.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:44.249][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.254][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.259][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.260][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 21:31:44.260][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 21:31:44.261][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 21:31:44.262][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.263][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.264][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.266][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.267][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.268][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.269][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.270][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.271][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.272][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.273][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.274][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.276][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.277][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 21:31:44.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.286][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.299][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-17 21:31:44.300][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:44.301][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:44.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:44.307][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:44.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:44.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:44.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:44.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.319][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.319][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 21:31:44.321][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 21:31:44.322][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 21:31:44.323][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.324][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.325][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.327][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.328][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.329][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.330][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.331][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.332][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.333][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.342][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.344][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.345][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.346][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.348][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 21:31:44.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.357][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.361][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-17 21:31:44.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:44.363][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:44.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:44.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:44.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:44.370][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:44.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:44.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.376][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.380][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.381][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 21:31:44.382][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 21:31:44.383][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 21:31:44.384][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.385][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.386][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.387][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.388][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.389][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.391][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.392][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.393][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.394][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.395][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.397][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.398][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 21:31:44.400][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.413][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-17 21:31:44.414][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-17 21:31:44.415][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-17 21:31:44.425][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.433][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:44.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:44.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:44.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:44.510][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:44.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:44.511][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:44.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 21:31:44.515][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:44.518][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:44.520][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-17 21:31:44.521][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-17 21:31:44.524][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:44.526][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:44.529][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-17 21:31:44.530][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:44.533][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:44.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:44.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:44.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:44.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:44.541][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:44.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:44.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:44.555][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:44.556][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:44.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:44.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:44.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:44.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:44.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:44.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:44.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:44.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:44.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:44.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:44.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:44.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:44.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:44.589][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.597][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:44.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:44.625][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-17 21:31:44.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:44.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:44.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:44.665][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:44.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:44.667][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:44.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:44.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.676][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.677][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 21:31:44.678][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 21:31:44.679][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 21:31:44.680][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.681][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.682][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.684][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.685][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.686][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.688][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.689][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.690][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.691][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.692][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.694][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.695][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 21:31:44.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.708][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-17 21:31:44.709][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:44.710][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:44.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:44.716][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:44.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:44.719][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:44.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:44.734][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.764][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.765][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 21:31:44.766][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 21:31:44.767][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 21:31:44.768][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.769][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.770][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.772][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.773][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.774][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.776][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.777][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.788][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.789][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.790][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.792][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.793][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.794][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 21:31:44.796][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.819][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-17 21:31:44.820][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:44.821][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:44.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:44.827][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:44.828][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:44.829][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:44.830][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:44.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.839][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.839][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 21:31:44.840][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 21:31:44.841][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 21:31:44.842][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.843][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.844][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.846][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.847][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.848][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.850][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.851][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.852][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:44.853][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.854][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.856][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.857][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 21:31:44.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:44.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.871][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-17 21:31:44.872][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-17 21:31:44.873][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-17 21:31:44.883][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-17 21:31:44.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-17 21:31:44.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-17 21:31:44.891][biodb::testThat]
biodb.INFO [2025-10-17 21:31:44.892][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-10-17 21:31:44.893][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:44.894][biodb::testThat]
biodb.TRACE[2025-10-17 21:31:44.897][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-17 21:31:44.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-17 21:31:44.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.913][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:44.920][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:44.921][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:44.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:44.927][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:44.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:44.929][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:44.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 21:31:44.933][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:44.935][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:44.938][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-17 21:31:44.939][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:44.942][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:44.943][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:44.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:44.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:44.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:44.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:44.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:44.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:44.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:44.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:44.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 21:31:44.966][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:44.969][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:44.972][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-17 21:31:44.973][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:44.976][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:44.977][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:44.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:44.996][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:44.997][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:44.999][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:45.002][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.006][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:45.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.015][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.021][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:45.025][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.029][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.033][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:45.038][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-17 21:31:45.039][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.040][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.047][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.049][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:45.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.056][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.061][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.062][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 21:31:45.063][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 21:31:45.064][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 21:31:45.065][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.067][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.068][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.070][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.071][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.073][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.075][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.076][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.077][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.078][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.080][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.082][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.083][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 21:31:45.084][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.092][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.096][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-17 21:31:45.097][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:45.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.112][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.116][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.117][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 21:31:45.118][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 21:31:45.119][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 21:31:45.120][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.121][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.122][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.124][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.125][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.126][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.128][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.129][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.130][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.130][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.132][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.133][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.134][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 21:31:45.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.143][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.148][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-17 21:31:45.149][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.150][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.151][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:45.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.178][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.179][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 21:31:45.180][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 21:31:45.181][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 21:31:45.182][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.183][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.184][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.186][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.186][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.187][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.189][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.190][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.191][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.192][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.193][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.195][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.196][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 21:31:45.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.201][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.209][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-17 21:31:45.210][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-17 21:31:45.211][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-17 21:31:45.220][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.228][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.232][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:45.239][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.240][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.246][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.248][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 21:31:45.251][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:45.254][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:45.256][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-17 21:31:45.257][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-17 21:31:45.260][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:45.263][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:45.265][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-17 21:31:45.266][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:45.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.276][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.277][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.278][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.279][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:45.280][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.288][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:45.292][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.301][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:45.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.307][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.311][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:45.315][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.322][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.324][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:45.326][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:45.347][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-17 21:31:45.349][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.356][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.357][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:45.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.367][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.368][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 21:31:45.369][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 21:31:45.370][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 21:31:45.371][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.372][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.373][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.375][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.376][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.377][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.379][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.380][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.381][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.382][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.383][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.385][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.386][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 21:31:45.387][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.399][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-17 21:31:45.401][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.402][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.403][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.408][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.410][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:45.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.416][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.421][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.422][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 21:31:45.423][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 21:31:45.424][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 21:31:45.425][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.426][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.427][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.429][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.429][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.430][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.431][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.432][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.433][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.434][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.435][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.436][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.437][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.438][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.439][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 21:31:45.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.452][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-17 21:31:45.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.454][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.461][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.462][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:45.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.468][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.472][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.472][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 21:31:45.473][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 21:31:45.474][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 21:31:45.475][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.476][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.477][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.479][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.480][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.481][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.483][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.484][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.485][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.486][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.487][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.489][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.490][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 21:31:45.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.496][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.507][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.512][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-17 21:31:45.513][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-17 21:31:45.514][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-17 21:31:45.522][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-17 21:31:45.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-17 21:31:45.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-17 21:31:45.529][biodb::testThat]
biodb.INFO [2025-10-17 21:31:45.530][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-10-17 21:31:45.531][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:45.532][biodb::testThat]
biodb.TRACE[2025-10-17 21:31:45.534][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-17 21:31:45.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-17 21:31:45.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.539][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.543][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.547][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:45.559][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.560][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 21:31:45.572][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:45.574][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:45.577][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-17 21:31:45.578][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:45.580][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.581][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.587][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.588][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.589][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:45.592][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-17 21:31:45.604][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:45.607][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:45.609][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-17 21:31:45.610][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:45.613][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.620][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:45.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.632][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:45.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.637][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:45.646][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.654][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:45.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:45.658][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-17 21:31:45.660][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.670][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:45.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.685][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.689][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.690][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 21:31:45.691][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 21:31:45.692][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 21:31:45.692][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.693][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.694][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.696][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.697][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.698][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.700][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.701][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.702][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.703][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.704][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.706][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.707][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 21:31:45.708][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.721][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-17 21:31:45.722][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.723][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.729][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.731][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.732][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.TRACE[2025-10-17 21:31:45.733][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.742][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.743][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 21:31:45.744][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 21:31:45.746][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 21:31:45.747][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.748][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.749][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.751][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.752][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.754][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.756][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.757][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.758][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.759][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.760][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.762][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.763][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 21:31:45.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.772][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.776][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-17 21:31:45.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.784][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:45.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.796][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.797][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 21:31:45.798][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 21:31:45.799][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 21:31:45.800][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.801][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.802][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.804][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.805][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.806][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.808][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.809][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.810][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.811][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.812][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.814][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.814][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 21:31:45.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.828][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-17 21:31:45.829][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-17 21:31:45.830][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-17 21:31:45.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.859][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:45.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.881][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.882][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 21:31:45.886][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:45.889][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:45.890][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-17 21:31:45.891][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-17 21:31:45.894][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:45.897][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:45.899][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-17 21:31:45.900][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:45.903][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.904][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:45.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:45.927][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.928][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.929][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.934][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.935][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:45.937][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:45.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:45.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:45.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:45.972][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-17 21:31:45.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:45.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:45.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:45.980][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:45.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:45.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:45.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:45.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:45.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:45.991][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.992][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 21:31:45.993][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 21:31:45.994][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 21:31:45.995][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:45.997][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.998][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:45.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.000][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.001][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.002][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.013][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.014][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:46.016][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:46.017][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.018][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.020][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.021][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 21:31:46.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.026][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.029][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.034][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-17 21:31:46.035][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:46.035][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:46.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:46.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:46.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:46.043][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:46.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:46.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.049][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.053][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:46.054][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 21:31:46.055][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 21:31:46.056][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 21:31:46.057][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:46.058][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.059][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.061][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.062][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.063][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.065][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.066][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:46.067][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:46.068][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.069][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.071][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.072][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 21:31:46.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.087][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-17 21:31:46.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:46.089][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:46.090][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:46.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:46.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:46.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:46.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:46.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.108][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:46.109][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-17 21:31:46.109][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-17 21:31:46.110][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-17 21:31:46.111][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:46.112][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.113][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.115][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.116][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.118][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.119][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.120][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:46.121][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-17 21:31:46.122][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.123][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.125][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.126][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-17 21:31:46.127][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.140][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-17 21:31:46.141][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-17 21:31:46.142][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-17 21:31:46.161][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-17 21:31:46.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-17 21:31:46.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-17 21:31:46.170][biodb::testThat]
biodb.INFO [2025-10-17 21:31:46.171][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-10-17 21:31:46.172][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:46.181][biodb::testThat]
biodb.DEBUG[2025-10-17 21:31:46.183][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-10-17 21:31:46.184][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:46.186][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:46.188][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-10-17 21:31:46.189][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:46.191][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:46.192][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:46.193][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:46.194][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:46.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:46.199][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:46.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:46.201][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:46.202][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:46.204][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.205][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.207][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.212][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:46.213][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:46.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.215][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.217][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:46.218][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:46.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.219][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.221][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:46.222][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:46.223][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.224][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.225][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:46.226][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:46.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.228][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.229][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:46.230][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:46.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.232][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.233][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:46.234][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:46.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.236][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.237][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:46.238][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:46.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.241][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.242][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:46.243][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:46.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.245][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.247][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:46.248][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:46.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.250][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.251][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:46.253][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:46.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.255][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.284][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:46.296][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-10-17 21:31:46.297][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-10-17 21:31:46.305][biodb::testThat]
biodb.INFO [2025-10-17 21:31:46.306][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-10-17 21:31:46.307][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:46.308][biodb::testThat]
biodb.DEBUG[2025-10-17 21:31:46.317][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-10-17 21:31:46.318][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-10-17 21:31:46.319][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-10-17 21:31:46.320][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:46.323][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-10-17 21:31:46.326][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-10-17 21:31:46.330][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-10-17 21:31:46.331][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:46.332][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-10-17 21:31:46.334][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:46.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:46.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:46.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:46.343][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:46.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:46.345][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:46.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:46.356][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.358][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.360][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.365][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:46.366][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:46.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.368][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.369][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:46.370][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:46.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.372][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.373][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:46.374][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:46.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.376][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.377][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:46.378][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:46.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.380][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.381][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:46.382][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:46.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.384][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.385][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:46.386][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:46.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.388][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.389][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:46.390][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:46.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.392][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.393][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:46.394][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:46.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.396][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.397][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:46.398][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:46.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.400][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.402][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:46.403][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:46.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.405][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.410][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.420][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.429][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:46.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:46.439][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:46.440][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:46.445][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:46.446][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:46.446][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:46.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:46.450][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.451][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.453][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.459][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:46.460][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:46.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.462][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.463][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:46.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:46.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.467][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:46.469][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:46.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.471][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.472][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:46.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:46.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.477][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:46.478][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:46.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.480][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.481][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:46.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:46.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.486][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:46.487][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:46.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.489][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.490][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:46.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:46.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.494][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:46.495][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:46.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.497][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.498][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:46.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:46.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.502][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:46.503][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:46.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.505][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.507][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:46.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:46.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.511][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:46.513][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:46.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.522][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:46.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:46.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.529][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:46.530][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:46.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.532][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.533][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:46.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:46.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.537][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:46.538][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:46.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.540][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.541][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:46.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:46.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.545][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:46.546][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:46.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.547][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.549][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:46.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:46.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:46.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:46.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:46.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:46.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:46.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:46.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:46.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-17 21:31:46.597][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.598][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.601][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.607][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:46.608][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:46.609][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.610][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.611][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:46.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:46.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.615][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:46.616][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:46.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.618][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.619][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:46.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:46.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.623][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:46.624][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:46.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.626][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.628][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:46.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:46.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.632][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:46.633][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:46.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.635][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:46.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:46.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.640][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:46.641][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:46.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.643][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.645][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:46.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:46.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.649][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:46.650][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:46.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.652][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.653][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:46.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:46.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.657][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:46.658][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:46.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.660][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.661][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:46.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:46.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.665][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:46.666][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:46.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.668][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.670][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:46.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:46.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.674][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:46.675][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:46.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.677][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.679][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:46.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:46.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.683][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:46.692][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:46.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.694][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.696][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:46.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:46.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:46.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.723][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.760][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:46.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:46.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:46.764][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-10-17 21:31:46.765][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-10-17 21:31:46.767][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-10-17 21:31:46.780][biodb::testThat]
biodb.INFO [2025-10-17 21:31:46.781][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-10-17 21:31:46.782][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:46.783][biodb::testThat]
biodb.INFO [2025-10-17 21:31:46.806][biodb::testThat]
biodb.INFO [2025-10-17 21:31:46.807][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-10-17 21:31:46.808][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:46.809][biodb::testThat]
biodb.INFO [2025-10-17 21:31:46.817][biodb::testThat]
biodb.INFO [2025-10-17 21:31:46.818][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-10-17 21:31:46.819][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:46.819][biodb::testThat]
sched.DEBUG[2025-10-17 21:31:46.822][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:46.824][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:46.830][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-10-17 21:31:46.832][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-17 21:31:46.843][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:46.844][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:46.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.847][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:46.848][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:46.849][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:46.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:46.851][ef$get] fields variable is a list.
biodb.INFO [2025-10-17 21:31:46.861][biodb::testThat]
biodb.INFO [2025-10-17 21:31:46.863][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-10-17 21:31:46.864][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:46.865][biodb::testThat]
biodb.ERROR[2025-10-17 21:31:46.879][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-10-17 21:31:46.896][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-10-17 21:31:46.909][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-17 21:31:46.911][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-17 21:31:46.912][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-17 21:31:46.913][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:46.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:46.915][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:46.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:46.917][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:46.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-17 21:31:46.930][biodb::testContext]
biodb.INFO [2025-10-17 21:31:46.932][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-17 21:31:46.933][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-10-17 21:31:46.934][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-17 21:31:46.935][biodb::testContext]
biodb.INFO [2025-10-17 21:31:46.938][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-17 21:31:46.940][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-17 21:31:46.945][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 21:31:46.946][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-17 21:31:46.947][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-17 21:31:46.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:46.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:46.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:46.951][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-17 21:31:46.952][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-17 21:31:46.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:46.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:46.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:46.956][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-17 21:31:46.957][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-17 21:31:46.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:46.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:46.959][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[2025-10-17 21:31:46.960][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-17 21:31:46.961][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-17 21:31:46.963][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-17 21:31:46.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:46.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:46.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:46.966][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-17 21:31:46.967][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-17 21:31:46.968][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-17 21:31:46.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:46.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:46.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:46.972][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-17 21:31:46.973][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-17 21:31:46.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:46.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:46.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:46.977][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-17 21:31:46.978][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-17 21:31:46.979][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-17 21:31:46.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:46.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:46.981][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.DEBUG[2025-10-17 21:31:46.982][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-17 21:31:46.984][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-17 21:31:46.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:46.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:46.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:46.987][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-17 21:31:46.988][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-17 21:31:46.989][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-17 21:31:46.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:46.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:46.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:46.993][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-17 21:31:46.994][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-17 21:31:46.995][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-17 21:31:46.996][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-17 21:31:46.997][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-17 21:31:46.998][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-17 21:31:46.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.001][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-17 21:31:47.002][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-17 21:31:47.003][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.006][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-17 21:31:47.007][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-17 21:31:47.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.011][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-17 21:31:47.012][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-17 21:31:47.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.016][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-17 21:31:47.017][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-17 21:31:47.019][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-17 21:31:47.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.032][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-17 21:31:47.034][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-17 21:31:47.038][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-17 21:31:47.039][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.043][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-17 21:31:47.044][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-17 21:31:47.045][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-17 21:31:47.046][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.048][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-17 21:31:47.050][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:47.051][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-17 21:31:47.052][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.053][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 21:31:47.054][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.055][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 21:31:47.056][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:47.057][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 21:31:47.058][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-17 21:31:47.059][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 21:31:47.060][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.061][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-17 21:31:47.062][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 21:31:47.063][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:47.064][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.065][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 21:31:47.065][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 21:31:47.065][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 21:31:47.065][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-17 21:31:47.065][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-17 21:31:47.066][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 21:31:47.067][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:47.068][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:47.069][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 21:31:47.070][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:47.071][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:47.072][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 21:31:47.073][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:47.074][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 21:31:47.075][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 21:31:47.076][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:47.077][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:47.078][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-17 21:31:47.080][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:47.081][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-17 21:31:47.082][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.083][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 21:31:47.084][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.085][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 21:31:47.086][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:47.087][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 21:31:47.088][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-17 21:31:47.089][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 21:31:47.090][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.092][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-17 21:31:47.093][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 21:31:47.094][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:47.095][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.096][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 21:31:47.096][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 21:31:47.096][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 21:31:47.096][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-17 21:31:47.096][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-17 21:31:47.097][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 21:31:47.098][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:47.099][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:47.100][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 21:31:47.101][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:47.102][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:47.103][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 21:31:47.104][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:47.105][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 21:31:47.106][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 21:31:47.107][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:47.108][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:47.110][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-17 21:31:47.112][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.113][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-17 21:31:47.114][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.115][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 21:31:47.116][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.117][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 21:31:47.118][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:47.119][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 21:31:47.120][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-17 21:31:47.121][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 21:31:47.122][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:47.123][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-17 21:31:47.124][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 21:31:47.124][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:47.125][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.126][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:47.127][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 21:31:47.128][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:47.129][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:47.130][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 21:31:47.131][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:47.132][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:47.133][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 21:31:47.134][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:47.135][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 21:31:47.136][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 21:31:47.137][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:47.138][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:47.139][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-17 21:31:47.141][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.142][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-17 21:31:47.143][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.144][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 21:31:47.145][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.146][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 21:31:47.147][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:47.148][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 21:31:47.149][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-17 21:31:47.150][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 21:31:47.151][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:47.152][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-17 21:31:47.153][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 21:31:47.154][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:47.155][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.156][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:47.157][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 21:31:47.158][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:47.159][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:47.160][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 21:31:47.160][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:47.161][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:47.162][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 21:31:47.163][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:47.164][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 21:31:47.165][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 21:31:47.166][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:47.167][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:47.168][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 21:31:47.169][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.170][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[2025-10-17 21:31:47.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.174][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.DEBUG[2025-10-17 21:31:47.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.179][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[2025-10-17 21:31:47.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.184][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[2025-10-17 21:31:47.185][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.197][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.204][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[2025-10-17 21:31:47.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.209][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[2025-10-17 21:31:47.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.214][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.227][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.230][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.235][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[2025-10-17 21:31:47.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.239][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.DEBUG[2025-10-17 21:31:47.240][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.247][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.247][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.248][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[2025-10-17 21:31:47.249][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-17 21:31:47.251][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-17 21:31:47.253][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-17 21:31:47.254][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-17 21:31:47.256][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-17 21:31:47.257][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-17 21:31:47.259][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-17 21:31:47.260][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-17 21:31:47.262][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-17 21:31:47.263][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-17 21:31:47.265][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-17 21:31:47.267][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-17 21:31:47.268][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-17 21:31:47.269][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-17 21:31:47.271][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-17 21:31:47.272][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-17 21:31:47.273][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-17 21:31:47.275][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-17 21:31:47.276][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-17 21:31:47.277][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-17 21:31:47.279][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-17 21:31:47.280][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-17 21:31:47.281][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-17 21:31:47.283][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-17 21:31:47.284][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-17 21:31:47.285][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-17 21:31:47.287][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-17 21:31:47.288][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-17 21:31:47.290][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-17 21:31:47.291][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-17 21:31:47.292][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-17 21:31:47.294][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-17 21:31:47.295][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-17 21:31:47.296][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-17 21:31:47.298][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-17 21:31:47.299][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-17 21:31:47.300][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-17 21:31:47.302][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-17 21:31:47.303][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-17 21:31:47.305][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-17 21:31:47.306][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-17 21:31:47.307][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-17 21:31:47.309][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-17 21:31:47.310][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-17 21:31:47.311][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-17 21:31:47.313][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-17 21:31:47.314][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-17 21:31:47.316][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-17 21:31:47.317][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-17 21:31:47.318][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-17 21:31:47.320][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-17 21:31:47.321][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-17 21:31:47.322][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-17 21:31:47.324][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-17 21:31:47.325][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-17 21:31:47.327][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-17 21:31:47.328][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-17 21:31:47.330][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-17 21:31:47.331][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-17 21:31:47.333][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-17 21:31:47.334][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-17 21:31:47.336][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-17 21:31:47.337][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-17 21:31:47.347][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-17 21:31:47.349][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-17 21:31:47.351][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-17 21:31:47.352][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-17 21:31:47.353][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-17 21:31:47.355][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-17 21:31:47.356][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-17 21:31:47.357][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-17 21:31:47.359][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-17 21:31:47.360][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-17 21:31:47.361][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-17 21:31:47.363][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-17 21:31:47.364][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-17 21:31:47.365][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-17 21:31:47.367][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-17 21:31:47.368][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-17 21:31:47.369][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-17 21:31:47.371][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-17 21:31:47.372][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-17 21:31:47.373][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-17 21:31:47.375][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-17 21:31:47.377][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-17 21:31:47.378][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 21:31:47.379][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.381][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.383][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.384][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.388][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.391][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.395][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.396][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.415][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[2025-10-17 21:31:47.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.418][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.427][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.440][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[2025-10-17 21:31:47.441][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.455][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.457][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.459][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.460][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.471][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[2025-10-17 21:31:47.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.477][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[2025-10-17 21:31:47.478][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:47.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.485][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-17 21:31:47.487][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-17 21:31:47.489][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:47.490][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-17 21:31:47.491][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.492][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 21:31:47.493][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.711][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 21:31:47.712][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.713][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-17 21:31:47.714][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-17 21:31:47.715][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 21:31:47.716][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.717][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-17 21:31:47.718][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 21:31:47.719][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-17 21:31:47.719][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-17 21:31:47.719][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-17 21:31:47.719][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-17 21:31:47.719][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-17 21:31:47.719][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-17 21:31:47.719][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-17 21:31:47.719][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-17 21:31:47.719][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-17 21:31:47.719][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-17 21:31:47.719][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-17 21:31:47.720][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:47.721][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 21:31:47.721][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 21:31:47.721][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 21:31:47.722][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-17 21:31:47.723][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:47.724][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:47.725][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 21:31:47.726][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:47.727][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:47.728][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 21:31:47.729][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-17 21:31:47.729][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-17 21:31:47.730][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 21:31:47.731][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 21:31:47.732][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:47.733][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-17 21:31:47.733][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-17 21:31:47.734][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-17 21:31:47.736][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-17 21:31:47.737][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-17 21:31:47.738][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-17 21:31:47.740][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-17 21:31:47.741][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-17 21:31:47.744][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-17 21:31:47.747][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-17 21:31:47.749][biodb::testThat]
biodb.INFO [2025-10-17 21:31:47.750][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-10-17 21:31:47.751][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:47.751][biodb::testThat]
sched.DEBUG[2025-10-17 21:31:47.754][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-17 21:31:47.756][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:47.762][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-17 21:31:47.763][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-17 21:31:47.766][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 [2025-10-17 21:31:47.769][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:47.771][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-17 21:31:47.772][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:47.774][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:47.775][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.780][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 21:31:47.784][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 [2025-10-17 21:31:47.786][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:47.788][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-17 21:31:47.789][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:47.791][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:47.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.797][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.799][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.800][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.DEBUG[2025-10-17 21:31:47.816][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:47.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.822][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.823][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.824][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.825][FUN] Functions in observer 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[2025-10-17 21:31:47.829][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 [2025-10-17 21:31:47.831][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:47.833][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-17 21:31:47.834][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:47.836][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:47.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.843][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.844][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".
sched.DEBUG[2025-10-17 21:31:47.846][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 [2025-10-17 21:31:47.848][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:47.850][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-17 21:31:47.851][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:47.853][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:47.853][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.854][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.859][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.859][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.860][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:47.862][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:47.863][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 21:31:47.875][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 [2025-10-17 21:31:47.877][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:47.879][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-17 21:31:47.880][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:47.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:47.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 21:31:47.893][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 [2025-10-17 21:31:47.896][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:47.898][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-17 21:31:47.899][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:47.901][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:47.902][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.903][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.908][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.910][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-17 21:31:47.913][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 [2025-10-17 21:31:47.915][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:47.918][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-10-17 21:31:47.919][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:47.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:47.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.929][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.930][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.931][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.932][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.INFO [2025-10-17 21:31:47.939][biodb::testThat]
biodb.INFO [2025-10-17 21:31:47.940][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-10-17 21:31:47.941][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:47.942][biodb::testThat]
sched.DEBUG[2025-10-17 21:31:47.946][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 [2025-10-17 21:31:47.949][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:47.951][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-10-17 21:31:47.952][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:47.954][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:47.955][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.956][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.961][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.962][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.963][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.964][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".
sched.DEBUG[2025-10-17 21:31:47.969][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 [2025-10-17 21:31:47.972][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:47.979][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-10-17 21:31:47.980][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:47.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:47.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:47.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:47.988][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:47.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:47.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:47.991][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.INFO [2025-10-17 21:31:47.996][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-17 21:31:47.997][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-17 21:31:47.998][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-17 21:31:47.999][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:48.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:48.001][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.002][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.003][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.INFO [2025-10-17 21:31:48.007][biodb::testContext]
biodb.INFO [2025-10-17 21:31:48.008][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-17 21:31:48.008][biodb::testContext] Test context - Test web services
biodb.INFO [2025-10-17 21:31:48.009][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-17 21:31:48.010][biodb::testContext]
biodb.INFO [2025-10-17 21:31:48.012][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-17 21:31:48.014][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-17 21:31:48.018][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 21:31:48.019][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-17 21:31:48.020][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-17 21:31:48.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.023][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-17 21:31:48.024][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-17 21:31:48.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.027][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-17 21:31:48.028][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-17 21:31:48.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.032][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-17 21:31:48.033][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-17 21:31:48.033][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-17 21:31:48.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.037][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-17 21:31:48.038][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-17 21:31:48.039][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-17 21:31:48.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.042][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-17 21:31:48.043][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-17 21:31:48.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.045][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.046][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-17 21:31:48.047][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-17 21:31:48.048][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-17 21:31:48.049][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.051][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.052][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-17 21:31:48.053][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-17 21:31:48.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.055][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.056][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-17 21:31:48.057][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-17 21:31:48.058][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-17 21:31:48.059][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.061][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-17 21:31:48.062][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-17 21:31:48.063][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-17 21:31:48.064][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-17 21:31:48.065][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-17 21:31:48.066][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-17 21:31:48.067][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.069][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[2025-10-17 21:31:48.070][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-17 21:31:48.071][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-17 21:31:48.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.074][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.075][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-17 21:31:48.076][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-17 21:31:48.076][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.078][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[2025-10-17 21:31:48.079][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-17 21:31:48.080][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-17 21:31:48.081][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.082][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.083][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-17 21:31:48.084][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-17 21:31:48.085][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-17 21:31:48.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.088][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.089][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-17 21:31:48.090][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-17 21:31:48.093][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-17 21:31:48.093][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.096][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-17 21:31:48.097][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-17 21:31:48.098][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-17 21:31:48.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.101][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-17 21:31:48.103][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.104][self$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[2025-10-17 21:31:48.105][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.106][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 21:31:48.107][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.108][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.109][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.110][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.111][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-17 21:31:48.112][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 21:31:48.113][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.113][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-17 21:31:48.114][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 21:31:48.115][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.116][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.117][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 21:31:48.117][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 21:31:48.117][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 21:31:48.117][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-17 21:31:48.117][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-17 21:31:48.118][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 21:31:48.119][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:48.120][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:48.121][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 21:31:48.122][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:48.123][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:48.124][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.124][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.125][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 21:31:48.126][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 21:31:48.127][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.128][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.129][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-17 21:31:48.131][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.132][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-17 21:31:48.133][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.134][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 21:31:48.135][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.136][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.137][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.138][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.139][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-17 21:31:48.140][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 21:31:48.141][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.142][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-17 21:31:48.143][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 21:31:48.144][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.145][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.146][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 21:31:48.146][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 21:31:48.146][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 21:31:48.146][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-17 21:31:48.146][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-17 21:31:48.147][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 21:31:48.148][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:48.149][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:48.150][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 21:31:48.151][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:48.152][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:48.153][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.154][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.155][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 21:31:48.156][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 21:31:48.157][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.158][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.159][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-17 21:31:48.161][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.162][self$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[2025-10-17 21:31:48.163][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.164][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 21:31:48.165][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.166][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.167][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.168][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.169][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-17 21:31:48.170][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 21:31:48.172][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.173][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-17 21:31:48.174][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 21:31:48.175][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.176][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.177][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.178][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 21:31:48.179][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:48.180][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:48.181][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 21:31:48.182][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:48.183][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:48.184][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.185][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.186][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 21:31:48.187][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 21:31:48.188][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.189][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.190][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-17 21:31:48.192][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.193][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-17 21:31:48.194][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.195][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 21:31:48.196][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.197][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.198][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.198][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.199][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-17 21:31:48.200][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 21:31:48.201][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.202][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-17 21:31:48.203][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 21:31:48.204][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.205][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.206][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.207][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 21:31:48.208][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:48.209][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:48.210][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 21:31:48.211][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:48.212][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:48.212][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.213][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.214][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 21:31:48.215][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 21:31:48.216][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.218][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.219][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 21:31:48.220][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.224][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.239][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.241][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.242][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[2025-10-17 21:31:48.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.248][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.256][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.258][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.259][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.260][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.269][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.273][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.280][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.285][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.286][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.288][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[2025-10-17 21:31:48.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.292][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.298][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.300][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.306][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-17 21:31:48.308][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-17 21:31:48.309][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-17 21:31:48.310][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-17 21:31:48.312][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-17 21:31:48.313][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-17 21:31:48.314][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-17 21:31:48.316][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-17 21:31:48.317][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-17 21:31:48.318][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-17 21:31:48.320][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-17 21:31:48.321][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-17 21:31:48.322][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-17 21:31:48.323][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-17 21:31:48.325][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-17 21:31:48.326][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-17 21:31:48.327][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-17 21:31:48.329][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-17 21:31:48.330][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-17 21:31:48.331][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-17 21:31:48.332][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-17 21:31:48.334][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-17 21:31:48.335][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-17 21:31:48.336][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-17 21:31:48.337][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-17 21:31:48.339][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-17 21:31:48.340][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-17 21:31:48.341][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-17 21:31:48.343][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-17 21:31:48.344][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-17 21:31:48.345][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-17 21:31:48.346][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-17 21:31:48.348][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-17 21:31:48.349][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-17 21:31:48.350][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-17 21:31:48.352][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-17 21:31:48.353][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-17 21:31:48.354][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-17 21:31:48.356][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-17 21:31:48.357][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-17 21:31:48.359][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-17 21:31:48.360][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-17 21:31:48.361][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-17 21:31:48.363][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-17 21:31:48.364][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-17 21:31:48.366][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-17 21:31:48.367][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-17 21:31:48.368][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-17 21:31:48.370][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-17 21:31:48.371][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-17 21:31:48.373][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-17 21:31:48.374][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-17 21:31:48.375][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-17 21:31:48.377][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-17 21:31:48.378][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-17 21:31:48.379][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-17 21:31:48.381][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-17 21:31:48.382][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-17 21:31:48.383][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-17 21:31:48.385][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-17 21:31:48.386][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-17 21:31:48.387][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-17 21:31:48.388][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-17 21:31:48.390][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-17 21:31:48.391][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-17 21:31:48.392][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-17 21:31:48.393][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-17 21:31:48.395][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-17 21:31:48.396][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-17 21:31:48.397][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-17 21:31:48.398][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-17 21:31:48.400][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-17 21:31:48.401][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-17 21:31:48.402][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-17 21:31:48.404][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-17 21:31:48.405][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-17 21:31:48.406][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-17 21:31:48.408][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-17 21:31:48.409][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-17 21:31:48.410][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-17 21:31:48.411][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-17 21:31:48.413][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-17 21:31:48.414][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-17 21:31:48.415][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-17 21:31:48.417][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-17 21:31:48.418][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 21:31:48.419][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.421][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.422][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[2025-10-17 21:31:48.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:48.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:48.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:48.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:48.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.433][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.436][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:48.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:48.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:48.443][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:48.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.445][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.448][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:48.450][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:48.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.454][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:48.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:48.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.459][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.460][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:48.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:48.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.466][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[2025-10-17 21:31:48.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:48.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:48.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.471][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:48.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:48.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.477][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:48.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:48.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.485][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.486][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:48.487][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:48.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:48.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:48.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:48.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:48.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.503][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[2025-10-17 21:31:48.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:48.505][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:48.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.507][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:48.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:48.513][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:48.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:48.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.524][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-17 21:31:48.525][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-17 21:31:48.527][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.528][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.529][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.530][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 21:31:48.531][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.532][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.533][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.534][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-17 21:31:48.535][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-17 21:31:48.536][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 21:31:48.538][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.539][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-17 21:31:48.540][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 21:31:48.541][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-17 21:31:48.541][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-17 21:31:48.541][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-17 21:31:48.541][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-17 21:31:48.541][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-17 21:31:48.541][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-17 21:31:48.541][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-17 21:31:48.541][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-17 21:31:48.541][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-17 21:31:48.541][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-17 21:31:48.541][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-17 21:31:48.542][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.543][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 21:31:48.543][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 21:31:48.543][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 21:31:48.544][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-17 21:31:48.545][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:48.546][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:48.547][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 21:31:48.548][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:48.549][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:48.550][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.551][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-17 21:31:48.551][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-17 21:31:48.552][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 21:31:48.553][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 21:31:48.554][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.555][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-17 21:31:48.555][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-17 21:31:48.556][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-17 21:31:48.558][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-17 21:31:48.566][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-17 21:31:48.568][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-17 21:31:48.569][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-17 21:31:48.571][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-17 21:31:48.574][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-17 21:31:48.577][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-17 21:31:48.579][biodb::testThat]
biodb.INFO [2025-10-17 21:31:48.580][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-10-17 21:31:48.581][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:48.582][biodb::testThat]
sched.DEBUG[2025-10-17 21:31:48.584][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-17 21:31:48.587][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:48.592][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-17 21:31:48.593][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-17 21:31:48.597][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-17 21:31:48.599][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:48.602][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-17 21:31:48.602][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-17 21:31:48.610][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-17 21:31:48.611][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-17 21:31:48.612][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-17 21:31:48.613][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:48.614][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:48.615][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.616][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-17 21:31:48.621][biodb::testContext]
biodb.INFO [2025-10-17 21:31:48.621][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-17 21:31:48.622][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-10-17 21:31:48.623][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-17 21:31:48.624][biodb::testContext]
biodb.INFO [2025-10-17 21:31:48.626][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-17 21:31:48.628][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-17 21:31:48.632][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 21:31:48.633][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-17 21:31:48.634][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-17 21:31:48.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.637][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-17 21:31:48.638][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-17 21:31:48.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.641][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-17 21:31:48.642][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-17 21:31:48.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.646][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-17 21:31:48.647][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-17 21:31:48.648][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-17 21:31:48.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.651][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-17 21:31:48.652][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-17 21:31:48.653][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-17 21:31:48.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.657][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-17 21:31:48.658][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-17 21:31:48.659][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.662][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-17 21:31:48.663][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-17 21:31:48.664][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-17 21:31:48.665][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.666][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.667][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[2025-10-17 21:31:48.668][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-17 21:31:48.669][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-17 21:31:48.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.673][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-17 21:31:48.674][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-17 21:31:48.675][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-17 21:31:48.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.678][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[2025-10-17 21:31:48.679][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-17 21:31:48.680][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-17 21:31:48.681][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-17 21:31:48.682][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-17 21:31:48.683][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-17 21:31:48.684][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-17 21:31:48.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.687][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-17 21:31:48.688][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-17 21:31:48.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.691][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-17 21:31:48.692][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-17 21:31:48.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.696][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-17 21:31:48.697][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-17 21:31:48.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.700][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-17 21:31:48.701][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-17 21:31:48.702][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-17 21:31:48.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.705][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-17 21:31:48.706][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-17 21:31:48.710][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-17 21:31:48.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.712][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[2025-10-17 21:31:48.713][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-17 21:31:48.714][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-17 21:31:48.715][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-17 21:31:48.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.719][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-17 21:31:48.721][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.722][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-17 21:31:48.723][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.724][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 21:31:48.725][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.726][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.727][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.728][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.729][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-17 21:31:48.730][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 21:31:48.731][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.732][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-17 21:31:48.733][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 21:31:48.734][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.735][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.736][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 21:31:48.736][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 21:31:48.736][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 21:31:48.736][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-17 21:31:48.736][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-17 21:31:48.737][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 21:31:48.738][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:48.739][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:48.740][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 21:31:48.741][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:48.742][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:48.744][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.745][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.746][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 21:31:48.747][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 21:31:48.748][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.749][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.750][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-17 21:31:48.752][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.754][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-17 21:31:48.755][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.756][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 21:31:48.757][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.758][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.759][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.760][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.762][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-17 21:31:48.763][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 21:31:48.764][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.765][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-17 21:31:48.767][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 21:31:48.768][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.769][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.770][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 21:31:48.770][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 21:31:48.770][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 21:31:48.770][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-17 21:31:48.770][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-17 21:31:48.771][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 21:31:48.773][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:48.774][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:48.775][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 21:31:48.776][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:48.777][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:48.779][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.780][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.781][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 21:31:48.782][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 21:31:48.783][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.784][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.786][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-17 21:31:48.788][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.789][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-17 21:31:48.790][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.791][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 21:31:48.792][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.793][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.794][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.795][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.796][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-17 21:31:48.797][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 21:31:48.798][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.799][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-17 21:31:48.800][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 21:31:48.802][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.803][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.804][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.804][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 21:31:48.805][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:48.806][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:48.807][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 21:31:48.808][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:48.809][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:48.810][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.811][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.812][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 21:31:48.812][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 21:31:48.813][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.814][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.815][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-17 21:31:48.817][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.818][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-17 21:31:48.819][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.820][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 21:31:48.821][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.823][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.824][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.825][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.826][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-17 21:31:48.827][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 21:31:48.828][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.829][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-17 21:31:48.830][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 21:31:48.831][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.832][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:48.834][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.835][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-17 21:31:48.836][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:48.837][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:48.838][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 21:31:48.839][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:48.840][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:48.841][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 21:31:48.842][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.843][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 21:31:48.844][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 21:31:48.845][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:48.847][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-17 21:31:48.848][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 21:31:48.849][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.850][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.853][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.855][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.856][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.870][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.DEBUG[2025-10-17 21:31:48.871][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.886][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.895][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.897][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.898][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.900][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.906][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.907][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.908][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.909][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.912][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.919][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.926][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.928][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:48.928][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:48.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:48.930][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:48.931][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:48.932][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-17 21:31:48.933][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-17 21:31:48.935][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-17 21:31:48.936][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-17 21:31:48.937][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-17 21:31:48.939][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-17 21:31:48.940][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-17 21:31:48.941][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-17 21:31:48.943][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-17 21:31:48.944][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-17 21:31:48.945][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-17 21:31:48.946][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-17 21:31:48.948][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-17 21:31:48.949][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-17 21:31:48.950][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-17 21:31:48.952][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-17 21:31:48.953][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-17 21:31:48.954][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-17 21:31:48.956][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-17 21:31:48.957][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-17 21:31:48.958][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-17 21:31:48.960][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-17 21:31:48.961][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-17 21:31:48.963][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-17 21:31:48.964][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-17 21:31:48.966][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-17 21:31:48.968][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-17 21:31:48.969][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-17 21:31:48.971][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-17 21:31:48.972][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-17 21:31:48.974][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-17 21:31:48.975][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-17 21:31:48.977][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-17 21:31:48.978][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-17 21:31:48.980][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-17 21:31:48.981][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-17 21:31:48.983][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-17 21:31:48.984][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-17 21:31:48.986][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-17 21:31:48.987][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-17 21:31:48.988][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-17 21:31:48.990][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-17 21:31:48.991][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-17 21:31:48.992][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-17 21:31:48.994][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-17 21:31:48.995][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-17 21:31:48.996][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-17 21:31:48.997][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-17 21:31:48.999][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-17 21:31:49.000][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-17 21:31:49.001][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-17 21:31:49.002][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-17 21:31:49.004][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-17 21:31:49.005][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-17 21:31:49.006][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-17 21:31:49.008][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-17 21:31:49.009][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-17 21:31:49.010][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-17 21:31:49.011][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-17 21:31:49.013][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-17 21:31:49.014][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-17 21:31:49.015][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-17 21:31:49.016][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-17 21:31:49.018][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-17 21:31:49.019][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-17 21:31:49.020][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-17 21:31:49.022][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-17 21:31:49.023][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-17 21:31:49.024][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-17 21:31:49.026][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-17 21:31:49.027][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-17 21:31:49.029][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-17 21:31:49.030][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-17 21:31:49.031][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-17 21:31:49.033][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-17 21:31:49.034][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-17 21:31:49.035][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-17 21:31:49.037][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-17 21:31:49.038][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-17 21:31:49.040][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-17 21:31:49.041][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-17 21:31:49.042][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-17 21:31:49.044][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-17 21:31:49.045][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-17 21:31:49.047][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-17 21:31:49.048][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-17 21:31:49.049][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:49.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:49.051][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:49.052][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[2025-10-17 21:31:49.053][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:49.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:49.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:49.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:49.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:49.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:49.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:49.059][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:49.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:49.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:49.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:49.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:49.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:49.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:49.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:49.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:49.067][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:49.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:49.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:49.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:49.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:49.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:49.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:49.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:49.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:49.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:49.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:49.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:49.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:49.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:49.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:49.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:49.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:49.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:49.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:49.084][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:49.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:49.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:49.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:49.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:49.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:49.089][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[2025-10-17 21:31:49.090][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:49.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:49.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:49.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:49.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:49.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:49.095][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[2025-10-17 21:31:49.096][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:49.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:49.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:49.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:49.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:49.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:49.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:49.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:49.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:49.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:49.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:49.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:49.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:49.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:49.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:49.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:49.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:49.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:49.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:49.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:49.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:49.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:49.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:49.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:49.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:49.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:49.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:49.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:49.121][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:49.122][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:49.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:49.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:49.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:49.125][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:49.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:49.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:49.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:49.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:49.130][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:49.131][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:49.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:49.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:49.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:49.135][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:49.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:49.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:49.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:49.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:49.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:49.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:49.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:49.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:49.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:49.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:49.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:49.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:49.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-17 21:31:49.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:49.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:49.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:49.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:49.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:49.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-17 21:31:49.154][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-17 21:31:49.156][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-17 21:31:49.158][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:49.159][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-17 21:31:49.160][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:49.161][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-17 21:31:49.162][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:49.163][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-17 21:31:49.164][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:49.172][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-17 21:31:49.173][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-17 21:31:49.174][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-17 21:31:49.175][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:49.176][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-17 21:31:49.177][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-17 21:31:49.178][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-17 21:31:49.178][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-17 21:31:49.178][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-17 21:31:49.178][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-17 21:31:49.178][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-17 21:31:49.178][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-17 21:31:49.178][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-17 21:31:49.178][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-17 21:31:49.178][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-17 21:31:49.178][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-17 21:31:49.178][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-17 21:31:49.179][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-17 21:31:49.180][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-17 21:31:49.180][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-17 21:31:49.180][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-17 21:31:49.181][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-17 21:31:49.182][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:49.183][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:49.184][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-17 21:31:49.185][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-17 21:31:49.186][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-17 21:31:49.187][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-17 21:31:49.188][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-17 21:31:49.188][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-17 21:31:49.189][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-17 21:31:49.190][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-17 21:31:49.191][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-17 21:31:49.192][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-17 21:31:49.192][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-17 21:31:49.193][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-17 21:31:49.195][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-17 21:31:49.196][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-17 21:31:49.198][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-17 21:31:49.199][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-17 21:31:49.200][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-17 21:31:49.204][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-17 21:31:49.206][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-17 21:31:49.208][biodb::testThat]
biodb.INFO [2025-10-17 21:31:49.209][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-10-17 21:31:49.210][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-17 21:31:49.210][biodb::testThat]
sched.DEBUG[2025-10-17 21:31:49.213][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-17 21:31:49.215][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:49.221][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-17 21:31:49.222][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-17 21:31:49.225][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 [2025-10-17 21:31:49.228][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-17 21:31:49.229][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-17 21:31:49.230][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-17 21:31:49.234][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-10-17 21:31:49.237][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-17 21:31:49.238][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-17 21:31:49.246][FUN] Found encoding UTF-8 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-10-17 21:31:49.248][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-17 21:31:49.249][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-17 21:31:49.250][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-17 21:31:49.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-17 21:31:49.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:49.253][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:49.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:49.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:49.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:49.260][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[2025-10-17 21:31:49.264][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:49.265][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:49.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.267][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:49.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:49.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.273][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:49.274][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:49.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.276][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.277][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-17 21:31:49.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-17 21:31:49.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.281][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:49.283][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:49.284][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.285][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.286][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-17 21:31:49.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-17 21:31:49.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.291][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-17 21:31:49.292][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-17 21:31:49.293][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.294][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.295][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-17 21:31:49.296][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-17 21:31:49.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.298][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.299][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:49.300][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:49.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.302][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.304][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:49.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-17 21:31:49.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.307][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:49.308][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:49.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.310][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.312][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-17 21:31:49.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-17 21:31:49.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.315][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:49.316][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:49.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.318][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.320][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:49.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-17 21:31:49.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.323][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:49.324][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:49.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.326][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.328][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-17 21:31:49.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-17 21:31:49.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.332][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:49.333][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:49.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.335][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.336][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-17 21:31:49.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-17 21:31:49.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.340][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:49.342][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:49.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.343][ef$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.345][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-17 21:31:49.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-17 21:31:49.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.349][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:49.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:49.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.353][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:49.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:49.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:49.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:49.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-17 21:31:49.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-17 21:31:49.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:49.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:49.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.369][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:49.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:49.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:49.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:49.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:49.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:49.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:49.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:49.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-17 21:31:49.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-17 21:31:49.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-17 21:31:49.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-17 21:31:49.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-17 21:31:49.389][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-10-17 21:31:49.393][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-17 21:31:49.395][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-17 21:31:49.396][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-17 21:31:49.396][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-17 21:31:49.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-17 21:31:49.398][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-17 21:31:49.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-17 21:31:49.400][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-17 21:31:49.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
 15.878   0.481  17.698

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.6160.0740.692
ChebiEntry0.1560.0040.159