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This page was generated on 2025-11-01 12:02 -0400 (Sat, 01 Nov 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4901
lconwaymacOS 12.7.6 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4691
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4637
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

Package 210/2361HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.16.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-10-31 13:45 -0400 (Fri, 31 Oct 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_22
git_last_commit: 28c1b2d
git_last_commit_date: 2025-10-29 11:12:25 -0400 (Wed, 29 Oct 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.6 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published

CHECK results for biodbChebi on nebbiolo2

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

raw results


Summary

Package: biodbChebi
Version: 1.16.0
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings biodbChebi_1.16.0.tar.gz
StartedAt: 2025-10-31 21:40:39 -0400 (Fri, 31 Oct 2025)
EndedAt: 2025-10-31 21:42:08 -0400 (Fri, 31 Oct 2025)
EllapsedTime: 89.2 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings biodbChebi_1.16.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck’
* using R version 4.5.1 Patched (2025-08-23 r88802)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* checking for file ‘biodbChebi/DESCRIPTION’ ... OK
* this is package ‘biodbChebi’ version ‘1.16.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

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


* installing to library ‘/home/biocbuild/bbs-3.22-bioc/R/site-library’
* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.16.0’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


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

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-10-31 21:41:22.664][biodb::testContext]
biodb.INFO [2025-10-31 21:41:22.667][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-31 21:41:22.668][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-10-31 21:41:22.669][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-31 21:41:22.670][biodb::testContext]
biodb.INFO [2025-10-31 21:41:22.677][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-10-31 21:41:22.679][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-31 21:41:22.687][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 21:41:22.688][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-31 21:41:22.689][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-31 21:41:22.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:22.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:22.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:22.693][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-31 21:41:22.712][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-31 21:41:22.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:22.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:22.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:22.716][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-31 21:41:22.717][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-31 21:41:22.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:22.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:22.731][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:22.732][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-31 21:41:22.733][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-31 21:41:22.734][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-31 21:41:22.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:22.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:22.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:22.738][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-31 21:41:22.739][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-31 21:41:22.740][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-31 21:41:22.740][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:22.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:22.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:22.743][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-31 21:41:22.744][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-31 21:41:22.745][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:22.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:22.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:22.748][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-31 21:41:22.749][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-31 21:41:22.750][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-31 21:41:22.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:22.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:22.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:22.753][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-31 21:41:22.755][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-31 21:41:22.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:22.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:22.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:22.758][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-31 21:41:22.759][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-31 21:41:22.760][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-31 21:41:22.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:22.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:22.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:22.764][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-31 21:41:22.765][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-31 21:41:22.766][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-31 21:41:22.767][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-31 21:41:22.768][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-31 21:41:22.769][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-31 21:41:22.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:22.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:22.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:22.773][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-31 21:41:22.774][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-31 21:41:22.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:22.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:22.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:22.778][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-31 21:41:22.779][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-31 21:41:22.780][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:22.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:22.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:22.782][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-31 21:41:22.784][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-31 21:41:22.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:22.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:22.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:22.787][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-31 21:41:22.788][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-31 21:41:22.789][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-31 21:41:22.790][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:22.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:22.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:22.793][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-31 21:41:22.794][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-31 21:41:22.799][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-31 21:41:22.800][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:22.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:22.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:22.804][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-31 21:41:22.805][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-31 21:41:22.806][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-31 21:41:22.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:22.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:22.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:22.813][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-31 21:41:22.863][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:22.887][self$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[2025-10-31 21:41:22.889][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:22.890][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 21:41:22.892][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:22.894][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 21:41:22.895][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:22.897][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 21:41:22.898][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-31 21:41:22.899][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 21:41:22.900][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:22.902][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-31 21:41:22.903][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 21:41:22.904][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:22.905][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:22.906][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 21:41:22.906][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 21:41:22.906][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 21:41:22.906][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-31 21:41:22.906][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-31 21:41:22.907][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 21:41:22.908][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:22.909][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:22.911][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 21:41:22.912][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:22.913][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:22.914][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 21:41:22.915][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:22.916][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 21:41:22.917][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 21:41:22.918][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:22.919][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:22.920][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-31 21:41:22.923][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:22.924][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-31 21:41:22.925][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:22.926][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 21:41:22.927][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:22.928][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 21:41:22.929][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:22.931][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 21:41:22.932][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-31 21:41:22.933][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 21:41:22.934][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:22.935][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-31 21:41:22.936][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 21:41:22.937][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:22.939][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:22.940][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 21:41:22.940][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 21:41:22.940][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 21:41:22.940][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-31 21:41:22.940][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-31 21:41:22.941][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 21:41:22.942][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:22.943][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:22.944][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 21:41:22.945][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:22.946][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:22.947][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 21:41:22.948][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:22.949][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 21:41:22.950][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 21:41:22.951][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:22.953][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:22.954][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-31 21:41:22.956][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:22.957][self$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[2025-10-31 21:41:22.959][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:22.960][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 21:41:22.961][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:22.962][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 21:41:22.963][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:22.964][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 21:41:22.965][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-31 21:41:22.966][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 21:41:22.967][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:22.969][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-31 21:41:22.970][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 21:41:22.971][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:22.972][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:22.973][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:22.975][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 21:41:22.976][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:22.977][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:22.978][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 21:41:22.979][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:22.980][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:22.981][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 21:41:22.982][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:22.984][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 21:41:22.985][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 21:41:22.986][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:22.988][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:22.989][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-31 21:41:22.991][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:23.011][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-31 21:41:23.012][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:23.014][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 21:41:23.015][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:23.016][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 21:41:23.017][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:23.018][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 21:41:23.019][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-31 21:41:23.021][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 21:41:23.022][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:23.023][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-31 21:41:23.024][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 21:41:23.025][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:23.026][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:23.027][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:23.028][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 21:41:23.029][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:23.030][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:23.031][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 21:41:23.032][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:23.033][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:23.034][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 21:41:23.035][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:23.036][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 21:41:23.037][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 21:41:23.038][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:23.039][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:23.044][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 21:41:23.045][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.050][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[2025-10-31 21:41:23.052][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.053][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.055][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[2025-10-31 21:41:23.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.061][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.071][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.074][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[2025-10-31 21:41:23.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.085][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.088][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[2025-10-31 21:41:23.089][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.099][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.100][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.107][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[2025-10-31 21:41:23.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.110][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.123][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-31 21:41:23.127][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-31 21:41:23.129][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-31 21:41:23.130][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-31 21:41:23.132][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-31 21:41:23.133][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-31 21:41:23.134][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-31 21:41:23.136][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-31 21:41:23.137][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-31 21:41:23.139][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-31 21:41:23.140][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-31 21:41:23.141][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-31 21:41:23.143][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-31 21:41:23.144][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-31 21:41:23.145][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-31 21:41:23.147][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-31 21:41:23.148][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-31 21:41:23.149][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-31 21:41:23.151][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-31 21:41:23.152][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-31 21:41:23.154][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-31 21:41:23.155][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-31 21:41:23.156][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-31 21:41:23.158][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-31 21:41:23.159][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-31 21:41:23.160][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-31 21:41:23.162][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-31 21:41:23.163][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-31 21:41:23.164][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-31 21:41:23.166][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-31 21:41:23.167][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-31 21:41:23.168][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-31 21:41:23.170][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-31 21:41:23.171][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-31 21:41:23.173][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-31 21:41:23.174][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-31 21:41:23.175][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-31 21:41:23.177][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-31 21:41:23.178][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-31 21:41:23.179][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-31 21:41:23.181][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-31 21:41:23.182][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-31 21:41:23.184][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-31 21:41:23.185][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-31 21:41:23.186][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-31 21:41:23.188][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-31 21:41:23.189][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-31 21:41:23.190][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-31 21:41:23.192][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-31 21:41:23.193][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-31 21:41:23.194][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-31 21:41:23.196][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-31 21:41:23.197][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-31 21:41:23.199][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-31 21:41:23.200][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-31 21:41:23.201][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-31 21:41:23.203][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-31 21:41:23.204][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-31 21:41:23.205][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-31 21:41:23.207][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-31 21:41:23.208][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-31 21:41:23.209][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-31 21:41:23.211][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-31 21:41:23.212][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-31 21:41:23.214][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-31 21:41:23.215][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-31 21:41:23.216][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-31 21:41:23.218][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-31 21:41:23.219][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-31 21:41:23.220][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-31 21:41:23.222][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-31 21:41:23.223][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-31 21:41:23.224][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-31 21:41:23.226][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-31 21:41:23.227][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-31 21:41:23.229][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-31 21:41:23.230][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-31 21:41:23.232][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-31 21:41:23.239][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-31 21:41:23.241][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-31 21:41:23.242][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-31 21:41:23.244][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-31 21:41:23.245][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-31 21:41:23.251][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-31 21:41:23.253][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-10-31 21:41:23.256][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 21:41:23.257][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.258][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:23.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:23.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:23.272][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:23.273][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.277][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.279][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:23.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:23.280][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.282][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.284][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:23.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:23.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.288][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.290][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:23.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:23.293][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:23.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:23.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.300][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.302][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.DEBUG[2025-10-31 21:41:23.303][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:23.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:23.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.306][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.307][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:23.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:23.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.313][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:23.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:23.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.321][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:23.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:23.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.326][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.326][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.327][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.328][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:23.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:23.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.333][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:23.335][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:23.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:23.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:23.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:23.347][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:23.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.351][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[2025-10-31 21:41:23.352][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:23.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:23.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.355][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:23.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:23.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:23.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:23.364][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-31 21:41:23.375][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-31 21:41:23.377][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:23.378][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-31 21:41:23.379][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:23.380][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 21:41:23.381][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:23.382][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 21:41:23.383][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:23.384][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-31 21:41:23.385][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-31 21:41:23.386][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 21:41:23.387][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:23.388][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-31 21:41:23.389][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 21:41:23.390][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-31 21:41:23.390][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-31 21:41:23.390][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-31 21:41:23.390][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-31 21:41:23.390][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-31 21:41:23.390][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-31 21:41:23.390][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-31 21:41:23.390][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-31 21:41:23.390][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-31 21:41:23.390][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-31 21:41:23.390][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-31 21:41:23.391][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:23.392][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 21:41:23.392][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 21:41:23.392][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 21:41:23.393][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-31 21:41:23.394][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:23.395][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:23.396][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 21:41:23.397][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:23.398][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:23.399][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 21:41:23.400][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-31 21:41:23.400][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-31 21:41:23.400][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 21:41:23.401][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 21:41:23.402][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:23.403][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-31 21:41:23.403][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-31 21:41:23.409][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-31 21:41:23.411][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-31 21:41:23.413][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-31 21:41:23.414][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-31 21:41:23.416][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-31 21:41:23.417][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-31 21:41:23.440][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-31 21:41:23.455][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-31 21:41:23.472][biodb::testThat]
biodb.INFO [2025-10-31 21:41:23.473][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-10-31 21:41:23.474][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:23.474][biodb::testThat]
biodb.TRACE[2025-10-31 21:41:23.478][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-10-31 21:41:23.480][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:23.483][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:23.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:23.492][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:23.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:23.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:23.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:23.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:23.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:23.517][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.518][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.520][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.537][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:23.538][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:23.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.540][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.567][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:23.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:23.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.571][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:23.572][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:23.573][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.574][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.575][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:23.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:23.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.580][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:23.581][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:23.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.582][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.584][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:23.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:23.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.588][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:23.589][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:23.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.591][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.592][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:23.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:23.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.596][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:23.597][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:23.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.599][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.600][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:23.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:23.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.604][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:23.605][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:23.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.607][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.609][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:23.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:23.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.613][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:23.614][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:23.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.616][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:23.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:23.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.621][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:23.622][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:23.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.624][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.625][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:23.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:23.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.630][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:23.631][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:23.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.632][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.634][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:23.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:23.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.638][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:23.639][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:23.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.641][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.642][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:23.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:23.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.647][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.720][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:23.728][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-10-31 21:41:23.731][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:23.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:23.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.735][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:23.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:23.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.763][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:23.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:23.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.768][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:23.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:23.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:23.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:23.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.776][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:23.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:23.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.780][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-31 21:41:23.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-31 21:41:23.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.784][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-31 21:41:23.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-31 21:41:23.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.789][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-31 21:41:23.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-31 21:41:23.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.792][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-31 21:41:23.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-31 21:41:23.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.815][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.853][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.857][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.883][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.884][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.886][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:23.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:23.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.910][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.911][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.912][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:23.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.924][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:23.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:23.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.928][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:23.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:23.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.932][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:23.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:23.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.935][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:23.936][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:23.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.938][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.939][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:23.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:23.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.950][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:23.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:23.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.954][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:23.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:23.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.957][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:23.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:23.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.961][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:23.962][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:23.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.964][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.965][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:23.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:23.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:23.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:23.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.980][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:23.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:23.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.984][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:23.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:23.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.988][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:23.989][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:23.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.990][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:23.991][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:23.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:23.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:23.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:24.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:24.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:24.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:24.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.010][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:24.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:24.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.014][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:24.015][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:24.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.017][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:24.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:24.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.068][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:24.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:24.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.072][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:24.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:24.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.076][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:24.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:24.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.080][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:24.081][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:24.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.082][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.083][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:24.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:24.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.094][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-31 21:41:24.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:24.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.098][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-31 21:41:24.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:24.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.102][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-31 21:41:24.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:24.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.106][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-31 21:41:24.107][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:24.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.109][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.110][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-31 21:41:24.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:24.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.121][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:24.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:24.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.125][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:24.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:24.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.129][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:24.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:24.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.133][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:24.134][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:24.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.136][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.137][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:24.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:24.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.148][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:24.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:24.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.152][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:24.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:24.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.156][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:24.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:24.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.160][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:24.161][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:24.162][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.163][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.164][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:24.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:24.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.174][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:24.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:24.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.178][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:24.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:24.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.182][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:24.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:24.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.186][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:24.187][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:24.188][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.189][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.190][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:24.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:24.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.201][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:24.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:24.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.206][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:24.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:24.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.209][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:24.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:24.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.213][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:24.214][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:24.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.216][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.217][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:24.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:24.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.229][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:24.230][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:24.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.232][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.236][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:24.238][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:24.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.239][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.248][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:24.249][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:24.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.251][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.255][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:24.256][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:24.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.258][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.262][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:24.264][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:24.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.266][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.272][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:24.273][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:24.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.275][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.279][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:24.280][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:24.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.282][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.286][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:24.287][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:24.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.289][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.293][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-31 21:41:24.294][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:24.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.296][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.300][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:24.301][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:24.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.303][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.307][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:24.308][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:24.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.309][ef$get] fields variable is a list.
biodb.INFO [2025-10-31 21:41:24.316][biodb::testThat]
biodb.INFO [2025-10-31 21:41:24.317][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-10-31 21:41:24.318][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:24.319][biodb::testThat]
biodb.DEBUG[2025-10-31 21:41:24.332][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-10-31 21:41:24.335][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:24.338][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:24.344][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-10-31 21:41:24.345][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:24.368][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:24.370][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:24.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:24.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:24.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:24.377][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:24.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:24.379][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:24.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:24.382][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:24.383][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:24.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.385][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:24.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:24.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.405][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:24.407][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:24.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.408][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.437][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:24.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:24.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.456][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:24.457][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:24.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.459][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.460][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:24.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:24.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.464][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:24.465][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:24.466][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.467][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.468][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:24.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:24.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.472][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:24.473][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:24.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.475][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.476][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:24.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:24.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.480][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:24.481][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:24.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.483][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.484][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:24.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:24.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.488][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:24.489][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:24.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.491][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.492][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:24.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:24.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.496][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:24.497][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:24.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.499][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:24.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:24.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.504][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:24.505][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:24.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.507][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.508][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:24.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:24.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.512][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:24.513][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:24.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.515][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.516][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:24.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:24.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.520][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:24.521][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:24.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.522][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.524][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:24.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:24.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.528][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:24.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:24.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.531][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:24.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:24.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.535][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:24.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:24.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.539][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:24.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:24.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.542][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:24.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:24.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.546][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:24.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:24.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:24.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:24.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:24.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:24.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:24.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:24.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:24.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:24.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:24.565][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-10-31 21:41:24.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-10-31 21:41:24.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-10-31 21:41:24.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-10-31 21:41:24.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-10-31 21:41:24.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-10-31 21:41:24.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-10-31 21:41:24.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-31 21:41:24.588][biodb::testThat]
biodb.INFO [2025-10-31 21:41:24.589][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-10-31 21:41:24.590][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:24.591][biodb::testThat]
biodb.TRACE[2025-10-31 21:41:24.593][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:24.594][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:24.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.596][ef$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:24.597][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-10-31 21:41:24.620][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:24.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:24.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.624][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:24.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:24.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.628][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:24.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:24.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:24.635][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-10-31 21:41:24.640][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-31 21:41:24.660][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:24.666][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-31 21:41:24.667][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-31 21:41:24.686][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 [2025-10-31 21:41:24.715][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:24.719][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-31 21:41:24.720][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:24.722][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-10-31 21:41:24.733][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:24.734][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:24.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.736][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.737][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:24.738][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:24.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.740][ef$get] fields variable is a list.
biodb.INFO [2025-10-31 21:41:24.743][biodb::testThat]
biodb.INFO [2025-10-31 21:41:24.749][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-10-31 21:41:24.750][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:24.751][biodb::testThat]
biodb.TRACE[2025-10-31 21:41:24.773][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:24.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:24.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.777][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:24.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:24.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.781][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:24.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:24.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 21:41:24.838][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 [2025-10-31 21:41:24.841][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:24.844][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-31 21:41:24.845][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-31 21:41:24.860][biodb::testThat]
biodb.INFO [2025-10-31 21:41:24.862][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-10-31 21:41:24.863][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:24.864][biodb::testThat]
biodb.TRACE[2025-10-31 21:41:24.883][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:24.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:24.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.887][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:24.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:24.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.891][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:24.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:24.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.898][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:24.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:24.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:24.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:24.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.912][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:24.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:24.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.919][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-31 21:41:24.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-31 21:41:24.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.936][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-31 21:41:24.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-31 21:41:24.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.944][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-31 21:41:24.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-31 21:41:24.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.951][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-31 21:41:24.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-31 21:41:24.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.990][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:24.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:24.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:24.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:24.997][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:24.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:25.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:25.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:25.004][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:25.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:25.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:25.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:25.011][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:25.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:25.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:25.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:25.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:25.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:25.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:25.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:25.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:25.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:25.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:25.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:25.035][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-31 21:41:25.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-31 21:41:25.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:25.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:25.042][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-31 21:41:25.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-31 21:41:25.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:25.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:25.049][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-31 21:41:25.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-31 21:41:25.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:25.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:25.056][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-31 21:41:25.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-31 21:41:25.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:25.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-31 21:41:25.071][biodb::testThat]
biodb.INFO [2025-10-31 21:41:25.073][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-10-31 21:41:25.075][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:25.077][biodb::testThat]
biodb.INFO [2025-10-31 21:41:25.099][biodb::testThat]
biodb.INFO [2025-10-31 21:41:25.103][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-10-31 21:41:25.107][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:25.110][biodb::testThat]
biodb.INFO [2025-10-31 21:41:25.134][biodb::testThat]
biodb.INFO [2025-10-31 21:41:25.136][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-10-31 21:41:25.139][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:25.142][biodb::testThat]
biodb.DEBUG[2025-10-31 21:41:25.150][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-10-31 21:41:25.882][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-10-31 21:41:26.335][biodb::testThat]
biodb.INFO [2025-10-31 21:41:26.342][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-10-31 21:41:26.350][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:26.353][biodb::testThat]
biodb.TRACE[2025-10-31 21:41:26.389][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:26.397][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:26.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:26.412][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:26.415][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:26.422][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:26.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:26.434][ef$get] fields variable is a list.
biodb.INFO [2025-10-31 21:41:26.449][biodb::testThat]
biodb.INFO [2025-10-31 21:41:26.461][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-10-31 21:41:26.464][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:26.467][biodb::testThat]
biodb.TRACE[2025-10-31 21:41:26.530][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:26.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:26.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:26.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:26.560][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:26.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:26.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:26.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:26.591][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:26.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:26.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:26.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 21:41:27.027][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 [2025-10-31 21:41:27.041][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:27.051][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-31 21:41:27.054][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-31 21:41:27.228][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 [2025-10-31 21:41:27.234][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:27.240][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-31 21:41:27.242][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-31 21:41:27.270][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-31 21:41:27.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-31 21:41:27.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:27.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:27.286][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:27.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:27.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:27.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:27.295][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:27.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:27.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:27.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:27.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:27.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:27.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:27.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:27.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:27.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:27.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:27.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:27.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:27.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:27.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:27.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 21:41:27.336][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 [2025-10-31 21:41:27.341][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:27.353][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-31 21:41:27.362][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:27.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:27.379][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:27.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:27.403][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:27.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:27.415][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:27.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:27.423][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-10-31 21:41:27.568][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:27.573][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:27.588][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-10-31 21:41:27.591][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:27.598][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:27.606][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:27.614][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:27.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:27.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:27.634][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:27.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:27.671][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:27.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:27.677][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:27.680][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:27.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:27.684][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:27.686][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:27.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:27.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:27.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:27.694][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:27.696][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:27.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:27.699][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:27.812][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:27.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:27.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:27.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:27.831][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:27.833][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:27.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:27.837][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:27.841][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:27.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:27.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:27.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:27.849][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:27.851][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:27.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:27.854][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:27.857][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:27.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:27.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:27.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:27.864][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:27.866][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:27.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:27.870][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:27.872][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:27.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:27.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:27.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:27.888][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:27.897][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:27.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:27.905][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:27.911][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:27.918][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:27.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:27.928][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:27.940][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:27.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:27.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:27.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:27.960][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:27.967][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:27.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:27.979][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:27.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:27.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:28.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.012][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:28.022][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:28.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.031][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.038][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:28.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:28.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.065][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:28.072][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:28.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.085][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.088][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:28.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:28.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.098][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:28.100][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:28.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.105][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.108][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:28.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:28.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:28.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:28.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.124][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:28.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:28.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:28.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:28.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.161][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:28.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:28.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:28.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:28.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:28.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:28.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:28.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:28.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:28.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:28.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:28.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:28.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:28.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:28.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:28.294][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-10-31 21:41:28.317][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:28.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:28.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.329][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:28.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:28.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.347][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:28.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:28.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 21:41:28.374][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 21:41:28.389][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:28.399][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-31 21:41:28.405][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:28.489][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:28.496][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:28.499][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:28.509][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:28.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:28.514][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:28.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:28.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:28.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:28.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:28.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:28.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.535][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:28.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:28.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:28.543][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:28.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:28.547][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:28.557][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:28.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:28.561][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:28.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:28.566][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-10-31 21:41:28.568][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:28.571][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:28.585][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-10-31 21:41:28.588][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:28.594][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:28.600][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:28.613][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:28.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:28.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:28.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:28.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:28.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:28.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:28.676][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:28.683][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:28.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.692][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:28.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:28.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.727][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:28.733][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:28.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.742][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.749][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:28.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:28.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.760][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:28.762][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:28.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.766][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.769][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:28.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:28.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.777][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:28.779][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:28.781][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.783][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.785][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:28.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:28.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.793][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:28.795][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:28.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.799][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.802][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:28.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:28.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.820][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:28.829][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:28.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.841][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.848][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:28.855][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:28.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.864][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.868][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:28.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:28.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.882][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:28.899][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:28.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.905][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.908][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:28.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:28.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.918][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:28.921][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:28.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.925][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.933][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:28.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:28.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.948][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:28.955][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:28.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.968][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.975][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:28.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:28.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:28.992][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:28.994][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:28.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:28.998][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.001][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:29.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:29.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.009][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:29.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:29.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.016][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:29.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:29.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.023][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:29.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:29.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.031][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:29.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:29.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:29.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:29.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.045][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:29.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:29.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:29.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:29.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:29.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:29.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.095][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:29.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:29.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:29.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:29.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:29.120][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-10-31 21:41:29.122][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.136][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 21:41:29.173][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 [2025-10-31 21:41:29.178][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:29.192][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-31 21:41:29.198][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:29.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:29.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:29.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:29.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:29.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:29.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:29.254][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[2025-10-31 21:41:29.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.278][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.301][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:29.322][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:29.324][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:29.329][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:29.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:29.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:29.343][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:29.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:29.348][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-10-31 21:41:29.350][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:29.353][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:29.362][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-10-31 21:41:29.369][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:29.372][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:29.379][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:29.387][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:29.394][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:29.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:29.417][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:29.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:29.424][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:29.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:29.465][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:29.475][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:29.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.483][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:29.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:29.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.506][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:29.508][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:29.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.512][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.518][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:29.525][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:29.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.533][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.540][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:29.546][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:29.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.554][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.559][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:29.561][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:29.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.568][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.575][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:29.582][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:29.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.595][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.599][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:29.601][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.616][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.624][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:29.631][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:29.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.639][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.650][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:29.653][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:29.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.661][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.664][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:29.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:29.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.687][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:29.694][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:29.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.698][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.707][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:29.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:29.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.728][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:29.735][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:29.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.740][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.747][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:29.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:29.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.765][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:29.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:29.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:29.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:29.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:29.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:29.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:29.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:29.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.797][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:29.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:29.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:29.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:29.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:29.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:29.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:29.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:29.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.824][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:29.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:29.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:29.831][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-10-31 21:41:29.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.852][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:29.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:29.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:29.872][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:29.874][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:29.891][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:29.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:29.899][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:29.905][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:29.910][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-10-31 21:41:29.917][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:29.924][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:29.937][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-10-31 21:41:29.944][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:29.951][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:29.958][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:29.962][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:29.965][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:29.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:29.976][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:29.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:29.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:29.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:29.986][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:29.988][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:29.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.991][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:29.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:29.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:29.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:29.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.014][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:30.016][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:30.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.020][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.022][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:30.024][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:30.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.028][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.030][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:30.032][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:30.034][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.035][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.038][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:30.039][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:30.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.043][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.045][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:30.046][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:30.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.049][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.052][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:30.053][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:30.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.061][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.064][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:30.070][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:30.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.079][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.086][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:30.091][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:30.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.100][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.113][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:30.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:30.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.132][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:30.138][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:30.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.147][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.150][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:30.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:30.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.159][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:30.161][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:30.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.165][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:30.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:30.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:30.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:30.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.184][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:30.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:30.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:30.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:30.196][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:30.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:30.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:30.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:30.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:30.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:30.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.224][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:30.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:30.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:30.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:30.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:30.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:30.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:30.262][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-10-31 21:41:30.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:30.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:30.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:30.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:30.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.319][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:30.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:30.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:30.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:30.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.373][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:30.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:30.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:30.397][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:30.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:30.411][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:30.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:30.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:30.449][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:30.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:30.463][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-10-31 21:41:30.471][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:30.478][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:30.494][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-10-31 21:41:30.497][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:30.501][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:30.504][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:30.508][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:30.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:30.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:30.526][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:30.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:30.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:30.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:30.541][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:30.543][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:30.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.548][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:30.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:30.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.561][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:30.563][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:30.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.567][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.570][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:30.572][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:30.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.576][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.615][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:30.621][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:30.629][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.634][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.643][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:30.650][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:30.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.663][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.671][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:30.682][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:30.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.693][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.702][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:30.714][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:30.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.729][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.733][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:30.744][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:30.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.760][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.770][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:30.778][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:30.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.793][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.802][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:30.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:30.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.828][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:30.835][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:30.840][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.850][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.858][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:30.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:30.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.886][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:30.894][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:30.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.904][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.913][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:30.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:30.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:30.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:30.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:30.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:30.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:30.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:31.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.022][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:31.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:31.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:31.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:31.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:31.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:31.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:31.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:31.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:31.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:31.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:31.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:31.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:31.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:31.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:31.138][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-10-31 21:41:31.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:31.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:31.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:31.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:31.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.158][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:31.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:31.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:31.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:31.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.176][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:31.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:31.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:31.187][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:31.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:31.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:31.206][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:31.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:31.213][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:31.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:31.220][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-10-31 21:41:31.223][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:31.228][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:31.252][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-10-31 21:41:31.260][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:31.273][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:31.278][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:31.283][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:31.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:31.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:31.300][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:31.303][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:31.306][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:31.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:31.320][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:31.328][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:31.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.344][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:31.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:31.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.384][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:31.391][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:31.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.406][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.415][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:31.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:31.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.451][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:31.459][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:31.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.478][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.489][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:31.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:31.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.549][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:31.558][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:31.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.574][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.584][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:31.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:31.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.622][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:31.631][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:31.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.651][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.655][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:31.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:31.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.688][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:31.692][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:31.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.699][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.704][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:31.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:31.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.718][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:31.730][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:31.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.746][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.755][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:31.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:31.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.794][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:31.803][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:31.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.816][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:31.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:31.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.839][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:31.843][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:31.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.859][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.874][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:31.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:31.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.916][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:31.927][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:31.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.944][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.957][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:31.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:31.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:31.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:31.997][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:32.014][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:32.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.035][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.042][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:32.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:32.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.060][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:32.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:32.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:32.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:32.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:32.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:32.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:32.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:32.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:32.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:32.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:32.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:32.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:32.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:32.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:32.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:32.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:32.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:32.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:32.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:32.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:32.219][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-10-31 21:41:32.222][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:32.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:32.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.233][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:32.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:32.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.243][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:32.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:32.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:32.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:32.276][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:32.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:32.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:32.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:32.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:32.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:32.356][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-10-31 21:41:32.367][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:32.381][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:32.403][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-10-31 21:41:32.412][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:32.425][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:32.436][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:32.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:32.467][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:32.479][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:32.521][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:32.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:32.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:32.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:32.580][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:32.595][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:32.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.605][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:32.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:32.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.660][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:32.676][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:32.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.703][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.719][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:32.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:32.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.768][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:32.783][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:32.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.792][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.799][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:32.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:32.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.816][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:32.821][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:32.824][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.828][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.833][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:32.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:32.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.851][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:32.859][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:32.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.882][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.903][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:32.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:32.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.925][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:32.930][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:32.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.937][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.963][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:32.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:32.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:32.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:32.989][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:32.994][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:32.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.004][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.011][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:33.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:33.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.030][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:33.035][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:33.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.043][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:33.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:33.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.064][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:33.067][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:33.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.073][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.079][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:33.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:33.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.096][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:33.101][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:33.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.108][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.114][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:33.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:33.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.130][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:33.134][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:33.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.140][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.145][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:33.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:33.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:33.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:33.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:33.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:33.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.198][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:33.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:33.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:33.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:33.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:33.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:33.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.257][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:33.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:33.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:33.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:33.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:33.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:33.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:33.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:33.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:33.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:33.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:33.334][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-10-31 21:41:33.338][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:33.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:33.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.351][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:33.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:33.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:33.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:33.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:33.381][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:33.384][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:33.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:33.413][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:33.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:33.425][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:33.430][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:33.436][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-10-31 21:41:33.441][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:33.449][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:33.465][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-10-31 21:41:33.470][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:33.476][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:33.482][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:33.489][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:33.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:33.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:33.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:33.570][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:33.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:33.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:33.588][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:33.592][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:33.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.599][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:33.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:33.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.618][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:33.622][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:33.624][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.628][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.632][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:33.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:33.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.644][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:33.647][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:33.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.653][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.657][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:33.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:33.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.670][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:33.674][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:33.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.678][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.682][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:33.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:33.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.695][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:33.698][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:33.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.705][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.709][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:33.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:33.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.723][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:33.726][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:33.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.732][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.737][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:33.740][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:33.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.745][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.748][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:33.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:33.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.762][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:33.766][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:33.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.772][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:33.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:33.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.788][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:33.790][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:33.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.795][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.800][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:33.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:33.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.813][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:33.816][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:33.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.822][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.826][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:33.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:33.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.841][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:33.845][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:33.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.851][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.856][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:33.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:33.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:33.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:33.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.881][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:33.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:33.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:33.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:33.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:33.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:33.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:33.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:33.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:33.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:33.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:33.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:33.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:33.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:33.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:33.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:33.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:33.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:33.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:33.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:33.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:33.990][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-10-31 21:41:33.994][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:33.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:34.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:34.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:34.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.019][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:34.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:34.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:34.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:34.036][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:34.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:34.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:34.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:34.068][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:34.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:34.117][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-10-31 21:41:34.122][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:34.128][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:34.151][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-10-31 21:41:34.166][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:34.184][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:34.199][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:34.216][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:34.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:34.241][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:34.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:34.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:34.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:34.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:34.331][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:34.348][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:34.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.369][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:34.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:34.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.422][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:34.436][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:34.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.456][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.472][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:34.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:34.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.499][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:34.503][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:34.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.515][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.524][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:34.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:34.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.552][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:34.560][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:34.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.574][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.583][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:34.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:34.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.613][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:34.616][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:34.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.623][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.626][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:34.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:34.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.636][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:34.643][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:34.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.652][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.659][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:34.666][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:34.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.681][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.689][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:34.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:34.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.721][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:34.731][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:34.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.740][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.748][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:34.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:34.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.782][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:34.789][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:34.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.803][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.815][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:34.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:34.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.840][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:34.847][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:34.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.860][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.868][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:34.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:34.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.893][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:34.897][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:34.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.903][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.907][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:34.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:34.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:34.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:34.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:34.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:34.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:34.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:34.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.949][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:34.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:34.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:34.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:34.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:34.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:34.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:34.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:34.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:34.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:34.991][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:34.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:35.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:35.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:35.015][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:35.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:35.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:35.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:35.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:35.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:35.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:35.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:35.115][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-10-31 21:41:35.127][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:35.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:35.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:35.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:35.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:35.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:35.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:35.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:35.199][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:35.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:35.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:35.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:35.356][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:35.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:35.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:35.417][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:35.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:35.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:35.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:35.455][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-10-31 21:41:35.467][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:35.481][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:35.507][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-10-31 21:41:35.512][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:35.532][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:35.546][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:35.568][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:35.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:35.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:35.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:35.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:35.644][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:35.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:35.668][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:35.676][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:35.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:35.690][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:35.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:35.709][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:35.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:35.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:35.731][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:35.743][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:35.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:35.758][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:35.770][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:35.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:35.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:35.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:35.806][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:35.814][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:35.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:35.828][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:35.845][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:35.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:35.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:35.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:35.883][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:35.892][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:35.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:35.908][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:35.921][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:35.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:35.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:35.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:35.957][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:35.970][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:35.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:35.979][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:35.984][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:35.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:35.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:35.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:35.999][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:36.002][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:36.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.007][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.011][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:36.015][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:36.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.020][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.023][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:36.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:36.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.035][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:36.038][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:36.040][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.047][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:36.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:36.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.091][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:36.100][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:36.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.122][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.131][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:36.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:36.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.156][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:36.164][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:36.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.185][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.191][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:36.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:36.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.226][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:36.241][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:36.245][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.253][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.265][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:36.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:36.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:36.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:36.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:36.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:36.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:36.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:36.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:36.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:36.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:36.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:36.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.389][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:36.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:36.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:36.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:36.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:36.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:36.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:36.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:36.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:36.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:36.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:36.565][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-10-31 21:41:36.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:36.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:36.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:36.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:36.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:36.642][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:36.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:36.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:36.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:36.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:36.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:36.701][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:36.738][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:36.752][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:36.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:36.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:36.784][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-10-31 21:41:36.797][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:36.810][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:36.834][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-10-31 21:41:36.848][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:36.865][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:36.880][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:36.897][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:36.910][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:36.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:36.962][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:36.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:36.984][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:36.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:37.020][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:37.034][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:37.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.057][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:37.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:37.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.124][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:37.133][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:37.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.156][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.167][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:37.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:37.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.207][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:37.220][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:37.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.236][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.240][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:37.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:37.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.271][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:37.275][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:37.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.282][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.287][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:37.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:37.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.300][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:37.303][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:37.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.310][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.314][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:37.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:37.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.326][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:37.330][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:37.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.336][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.341][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:37.344][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:37.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.355][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.368][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:37.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:37.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.398][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:37.411][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:37.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.423][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:37.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:37.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.469][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:37.482][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:37.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.501][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.512][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:37.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:37.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.531][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:37.534][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:37.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.539][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.543][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:37.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:37.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.555][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:37.557][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:37.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.563][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.567][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:37.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:37.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.577][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:37.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:37.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:37.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:37.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:37.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:37.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.622][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:37.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:37.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.651][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:37.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:37.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:37.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:37.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:37.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:37.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:37.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:37.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:37.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:37.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:37.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:37.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:37.936][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-10-31 21:41:37.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:37.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:37.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.981][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:37.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:37.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:37.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:37.997][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:38.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:38.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:38.016][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:38.019][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:38.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:38.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:38.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:38.084][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:38.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:38.104][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-10-31 21:41:38.108][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:38.124][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:38.146][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-10-31 21:41:38.157][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:38.170][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:38.185][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:38.202][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:38.216][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:38.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:38.248][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:38.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:38.257][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:38.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:38.270][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:38.279][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:38.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.301][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:38.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:38.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:38.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:38.364][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:38.373][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:38.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.398][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:38.414][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:38.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:38.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:38.452][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:38.457][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:38.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.465][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:38.470][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:38.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:38.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:38.488][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:38.492][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:38.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.500][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:38.506][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:38.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:38.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:38.519][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:38.522][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:38.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.533][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:38.547][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:38.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:38.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:38.590][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:38.599][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:38.607][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.615][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:38.625][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:38.638][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:38.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.656][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:38.670][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:38.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:38.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:38.711][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:38.720][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:38.731][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.736][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:38.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:38.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:38.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:38.796][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:38.803][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:38.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.824][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:38.834][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:38.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:38.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:38.860][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:38.868][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:38.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.887][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:38.896][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:38.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:38.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:38.926][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:38.934][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:38.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.949][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:38.957][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:38.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:38.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:38.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:39.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:39.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:39.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:39.052][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:39.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:39.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:39.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:39.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:39.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:39.090][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:39.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:39.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:39.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:39.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:39.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:39.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:39.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:39.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:39.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:39.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:39.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:39.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:39.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:39.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:39.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:39.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:39.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:39.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:39.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:39.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:39.382][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-10-31 21:41:39.385][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:39.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:39.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:39.397][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:39.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:39.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:39.410][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:39.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:39.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:39.438][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:39.446][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:39.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:39.488][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:39.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:39.512][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:39.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:39.539][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-10-31 21:41:39.544][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:39.562][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:39.578][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-10-31 21:41:39.591][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:39.601][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:39.615][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:39.631][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:39.638][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:39.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:39.698][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:39.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:39.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:39.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:39.727][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:39.737][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:39.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.750][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:39.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:39.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:39.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:39.810][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:39.824][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:39.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.841][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:39.859][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:39.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:39.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:39.894][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:39.903][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:39.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.924][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:39.938][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:39.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:39.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:39.956][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:39.960][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:39.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.966][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:39.971][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:39.975][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:39.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:39.981][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:39.985][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:39.988][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:39.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.003][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.017][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:40.030][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:40.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.045][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.059][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:40.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:40.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.092][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:40.104][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:40.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.122][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:40.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:40.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.180][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:40.185][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:40.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.209][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.229][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:40.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:40.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.263][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:40.275][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:40.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.290][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.304][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:40.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:40.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.337][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:40.345][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:40.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.362][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.368][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:40.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:40.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:40.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:40.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:40.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:40.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.413][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:40.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:40.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:40.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:40.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.496][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:40.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:40.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.509][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:40.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:40.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:40.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:40.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:40.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:40.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:40.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:40.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:40.552][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-10-31 21:41:40.555][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:40.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:40.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.566][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:40.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:40.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.578][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:40.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:40.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:40.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:40.592][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:40.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:40.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:40.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:40.618][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:40.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:40.627][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-10-31 21:41:40.631][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:40.637][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:40.654][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-10-31 21:41:40.667][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:40.683][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:40.692][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:40.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:40.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:40.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:40.781][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:40.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:40.803][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:40.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:40.838][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:40.852][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:40.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.875][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.888][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:40.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:40.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.906][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:40.909][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:40.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.915][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.918][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:40.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:40.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.930][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:40.933][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:40.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.939][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.944][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:40.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:40.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:40.962][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:40.974][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:40.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:40.992][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.006][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:41.020][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:41.032][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.044][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.059][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:41.071][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:41.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.091][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.098][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:41.103][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:41.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.113][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.119][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:41.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:41.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.141][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:41.150][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:41.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.173][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:41.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:41.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.237][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:41.245][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:41.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.268][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.285][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:41.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:41.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.356][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:41.365][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:41.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.390][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.397][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:41.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:41.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.416][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:41.421][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:41.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.433][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:41.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:41.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:41.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:41.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.527][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:41.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:41.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.569][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:41.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:41.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:41.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:41.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:41.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:41.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.681][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:41.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:41.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:41.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:41.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:41.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:41.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:41.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:41.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:41.792][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-10-31 21:41:41.796][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:41.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:41.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:41.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:41.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:41.824][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:41.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:41.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:41.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:41.834][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:41.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:41.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:41.852][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:41.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:41.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:41.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:41.868][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-10-31 21:41:41.872][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:41.877][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:41.896][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-10-31 21:41:41.915][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:41.928][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:41.937][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:41.951][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:41.964][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:41.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:42.003][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:42.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:42.019][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:42.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:42.046][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:42.053][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:42.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.061][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.066][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:42.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:42.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.078][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:42.081][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:42.084][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.087][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.092][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:42.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:42.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.105][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:42.109][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:42.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.115][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.119][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:42.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:42.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.130][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:42.133][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:42.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.138][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.141][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:42.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:42.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.152][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:42.155][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:42.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.161][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.165][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:42.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:42.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.176][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:42.179][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:42.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.184][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.188][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:42.191][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:42.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.196][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.199][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:42.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:42.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.211][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:42.214][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:42.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.219][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:42.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:42.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.233][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:42.236][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:42.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.240][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.244][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:42.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:42.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.253][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:42.256][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:42.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.261][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.264][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:42.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:42.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.274][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:42.276][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:42.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.280][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.283][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:42.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:42.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:42.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:42.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.302][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:42.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:42.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.374][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:42.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:42.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:42.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:42.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:42.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:42.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:42.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:42.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:42.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:42.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:42.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:42.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:42.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:42.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:42.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:42.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:42.546][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-10-31 21:41:42.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:42.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:42.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.560][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:42.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:42.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.572][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:42.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:42.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:42.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:42.586][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:42.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:42.605][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:42.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:42.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:42.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:42.620][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-10-31 21:41:42.623][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:42.628][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:42.649][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-10-31 21:41:42.660][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:42.674][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:42.689][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:42.698][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:42.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:42.705][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:42.724][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:42.729][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:42.733][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:42.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:42.744][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:42.748][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:42.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.754][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:42.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:42.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.768][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:42.771][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:42.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.775][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.779][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:42.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:42.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.788][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:42.791][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:42.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.794][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.797][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:42.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:42.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.807][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:42.809][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:42.811][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.813][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.816][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:42.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:42.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.824][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:42.826][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:42.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.830][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.833][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:42.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:42.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.842][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:42.844][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:42.846][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.848][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.851][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:42.853][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:42.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.857][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.861][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:42.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:42.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.870][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:42.873][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:42.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.877][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.880][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:42.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:42.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.889][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:42.891][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:42.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.895][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.900][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:42.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:42.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.910][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:42.913][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:42.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.917][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.920][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:42.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:42.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.929][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:42.931][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:42.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.963][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.969][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:42.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:42.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:42.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:42.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:42.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:42.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:42.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:43.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:43.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:43.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.017][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:43.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:43.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.027][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:43.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:43.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.037][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:43.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:43.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:43.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:43.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:43.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:43.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:43.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:43.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:43.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:43.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:43.097][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-10-31 21:41:43.100][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:43.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:43.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.110][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:43.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:43.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.121][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:43.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:43.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:43.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:43.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:43.136][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:43.151][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:43.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:43.158][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:43.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:43.166][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-10-31 21:41:43.170][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:43.175][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:43.185][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-10-31 21:41:43.190][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:43.195][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:43.199][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:43.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:43.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:43.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:43.226][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:43.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:43.233][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:43.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:43.244][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:43.248][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:43.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.254][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:43.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:43.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.269][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:43.272][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:43.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.276][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.280][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:43.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:43.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.290][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:43.293][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:43.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.297][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.301][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:43.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:43.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.310][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:43.313][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:43.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.318][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:43.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:43.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.332][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:43.336][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:43.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.340][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.344][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:43.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:43.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.353][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:43.356][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:43.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.360][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.364][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:43.367][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:43.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.373][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.379][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:43.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:43.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.391][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:43.394][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:43.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.399][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.403][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:43.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:43.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.415][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:43.418][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:43.420][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.422][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.426][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:43.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:43.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.466][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:43.472][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:43.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.480][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.484][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:43.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:43.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.495][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:43.498][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:43.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.502][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.506][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:43.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:43.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.516][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:43.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:43.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.525][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:43.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:43.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:43.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:43.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:43.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:43.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:43.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:43.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.555][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:43.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:43.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:43.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:43.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:43.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:43.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:43.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:43.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:43.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:43.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:43.598][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-10-31 21:41:43.601][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:43.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:43.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:43.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:43.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.619][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:43.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:43.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:43.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:43.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:43.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:43.648][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:43.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:43.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:43.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:43.665][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-10-31 21:41:43.669][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:43.674][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:43.691][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-10-31 21:41:43.703][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:43.716][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:43.729][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:43.745][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:43.749][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:43.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:43.770][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:43.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:43.779][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:43.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:43.792][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:43.796][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:43.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.805][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.812][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:43.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:43.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.833][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:43.846][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:43.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.858][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.867][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:43.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:43.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.882][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:43.885][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:43.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.890][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.894][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:43.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:43.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.904][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:43.906][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:43.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.911][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.914][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:43.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:43.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.927][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:43.934][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:43.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.948][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.957][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:43.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:43.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:43.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:43.995][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:44.007][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:44.015][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.027][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.037][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:44.045][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:44.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.064][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.073][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:44.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:44.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.103][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:44.106][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:44.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.111][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:44.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:44.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.149][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:44.152][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:44.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.157][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.161][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:44.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:44.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.171][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:44.173][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:44.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.177][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.181][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:44.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:44.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.189][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:44.192][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:44.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.196][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.198][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:44.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:44.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.208][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:44.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:44.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:44.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:44.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:44.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:44.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:44.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:44.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:44.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:44.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:44.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:44.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:44.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:44.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.273][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:44.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:44.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:44.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:44.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:44.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:44.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:44.300][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-10-31 21:41:44.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:44.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:44.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:44.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:44.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:44.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:44.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:44.329][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:44.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:44.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:44.346][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:44.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:44.352][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:44.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:44.359][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-10-31 21:41:44.362][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:44.366][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:44.382][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-10-31 21:41:44.391][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:44.399][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:44.408][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:44.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:44.429][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:44.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:44.463][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:44.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:44.472][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:44.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:44.483][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:44.487][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:44.490][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.493][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:44.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:44.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.512][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:44.515][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:44.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.521][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.525][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:44.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:44.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.539][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:44.542][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:44.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.555][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.563][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:44.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:44.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.590][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:44.603][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:44.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.618][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.625][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:44.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:44.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.660][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:44.667][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:44.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.681][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.694][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:44.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:44.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.738][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:44.747][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:44.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.766][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.775][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:44.825][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:44.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.833][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.838][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:44.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:44.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.850][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:44.853][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:44.856][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.858][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:44.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:44.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.874][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:44.877][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:44.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.882][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.891][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:44.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:44.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.933][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:44.941][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:44.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.947][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.953][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:44.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:44.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.964][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:44.966][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:44.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.971][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.974][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:44.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:44.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:44.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:44.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:44.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:44.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:44.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:44.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:45.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:45.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:45.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:45.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:45.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:45.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:45.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:45.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.043][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:45.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:45.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.053][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:45.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:45.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:45.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:45.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:45.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:45.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:45.079][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-10-31 21:41:45.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:45.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:45.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.089][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:45.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:45.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.097][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:45.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:45.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:45.106][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:45.107][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:45.109][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:45.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:45.127][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:45.130][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:45.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:45.135][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-10-31 21:41:45.138][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:45.142][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:45.149][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-10-31 21:41:45.152][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:45.156][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:45.160][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:45.166][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:45.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:45.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:45.189][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:45.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:45.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:45.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:45.210][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:45.214][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:45.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.221][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:45.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:45.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.237][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:45.241][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:45.243][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.245][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.249][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:45.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:45.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.261][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:45.264][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:45.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.269][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.273][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:45.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:45.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.285][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:45.288][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:45.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.293][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.297][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:45.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:45.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.310][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:45.341][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:45.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.350][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.356][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:45.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:45.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.369][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:45.373][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:45.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.379][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.383][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:45.387][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:45.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.392][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.395][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:45.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:45.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.408][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:45.410][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:45.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.416][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:45.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:45.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.431][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:45.434][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:45.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.438][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.443][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:45.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:45.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.456][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:45.458][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:45.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.464][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.468][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:45.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:45.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.480][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:45.482][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:45.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.486][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.489][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:45.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:45.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:45.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:45.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:45.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:45.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:45.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:45.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.528][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:45.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:45.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.538][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:45.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:45.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.548][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:45.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:45.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:45.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:45.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:45.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:45.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:45.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:45.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:45.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:45.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:45.593][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-10-31 21:41:45.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:45.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:45.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:45.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:45.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.615][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:45.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:45.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:45.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:45.626][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:45.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:45.643][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:45.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:45.650][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:45.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:45.657][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-10-31 21:41:45.660][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:45.664][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:45.679][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-10-31 21:41:45.686][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:45.695][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:45.699][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:45.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:45.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:45.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:45.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:45.772][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:45.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:45.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:45.804][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:45.812][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:45.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.827][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.840][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:45.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:45.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.873][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:45.880][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:45.891][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.895][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.900][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:45.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:45.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.914][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:45.917][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:45.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:45.922][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:45.926][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:45.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:45.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.010][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:46.014][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:46.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.029][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.037][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:46.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:46.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.061][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:46.065][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:46.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.072][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.078][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:46.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:46.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.092][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:46.095][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:46.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.099][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.103][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:46.105][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:46.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.124][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.133][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:46.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:46.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.170][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:46.183][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:46.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.201][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:46.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:46.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.261][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:46.265][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:46.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.283][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.298][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:46.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:46.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.335][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:46.340][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:46.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.346][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.351][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:46.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:46.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.368][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:46.371][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:46.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.389][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.398][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:46.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:46.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:46.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:46.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.460][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:46.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:46.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:46.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:46.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.524][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:46.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:46.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:46.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:46.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:46.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:46.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.617][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:46.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:46.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:46.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:46.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:46.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:46.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:46.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:46.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:46.770][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-10-31 21:41:46.778][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:46.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:46.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.818][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:46.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:46.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:46.850][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:46.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:46.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:46.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 21:41:46.991][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 21:41:47.013][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:47.031][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-31 21:41:47.038][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:47.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:47.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:47.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:47.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:47.107][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:47.114][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:47.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:47.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.236][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:47.270][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:47.276][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:47.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:47.298][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:47.302][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:47.305][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:47.308][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:47.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.330][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.338][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:47.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:47.359][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:47.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:47.378][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:47.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:47.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:47.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:47.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:47.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:47.445][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:47.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:47.460][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:47.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:47.465][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:47.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:47.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.479][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.489][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.498][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:47.515][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:47.516][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:47.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:47.531][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:47.534][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:47.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:47.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:47.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.555][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.565][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:47.575][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:47.578][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:47.580][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:47.595][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:47.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:47.603][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:47.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:47.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.639][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:47.652][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:47.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:47.658][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:47.675][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:47.679][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:47.682][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:47.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:47.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.714][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.790][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:47.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:47.816][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:47.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:47.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:47.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:47.835][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:47.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:47.841][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.852][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:47.871][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:47.873][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:47.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:47.887][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:47.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:47.896][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:47.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:47.924][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:47.977][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:47.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:47.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:47.998][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:48.001][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:48.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:48.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:48.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:48.047][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:48.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:48.056][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.069][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:48.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:48.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:48.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:48.103][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:48.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:48.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:48.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:48.112][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:48.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:48.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:48.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:48.152][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:48.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:48.157][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:48.160][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:48.163][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.171][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.180][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:48.188][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:48.189][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:48.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:48.203][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:48.206][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:48.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:48.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:48.213][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.222][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.230][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:48.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:48.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:48.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:48.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:48.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:48.258][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:48.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:48.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.281][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:48.312][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:48.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:48.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:48.329][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:48.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:48.335][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:48.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:48.340][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.350][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.359][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:48.367][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:48.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:48.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:48.381][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:48.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:48.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:48.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:48.392][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.401][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.409][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:48.416][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:48.417][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:48.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:48.428][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:48.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:48.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:48.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:48.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.451][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:48.458][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:48.459][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:48.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:48.471][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:48.473][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:48.475][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:48.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:48.480][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.488][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:48.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:48.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:48.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:48.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:48.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:48.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:48.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:48.524][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:48.585][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:48.587][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:48.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:48.611][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:48.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:48.618][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:48.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:48.627][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.648][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.656][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:48.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:48.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:48.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.708][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:48.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:48.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.729][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:48.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:48.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.754][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:48.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:48.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:48.771][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:48.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:48.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:48.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 21:41:48.890][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 21:41:48.902][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:48.910][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-10-31 21:41:48.915][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-31 21:41:48.931][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 21:41:48.944][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:48.954][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-10-31 21:41:48.961][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:48.967][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:48.970][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:48.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:48.982][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:48.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:48.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:48.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:48.991][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-10-31 21:41:48.993][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:48.996][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:49.010][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-10-31 21:41:49.016][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:49.024][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:49.031][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:49.038][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:49.044][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:49.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:49.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:49.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:49.083][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:49.086][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:49.099][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:49.105][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:49.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.115][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:49.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:49.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.151][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:49.157][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:49.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.165][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.176][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:49.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:49.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.199][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:49.207][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:49.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.216][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.223][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:49.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:49.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.246][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:49.253][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:49.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.261][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.268][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:49.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:49.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.290][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:49.293][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:49.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.301][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.308][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:49.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:49.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.330][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:49.342][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:49.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.357][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.362][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:49.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:49.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.394][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:49.397][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:49.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.408][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.423][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:49.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:49.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.449][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:49.452][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:49.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.464][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.470][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:49.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:49.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.492][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:49.495][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:49.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.500][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.523][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:49.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:49.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.534][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:49.536][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:49.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.540][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.543][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:49.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:49.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.551][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:49.553][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:49.554][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.556][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.559][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:49.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:49.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:49.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:49.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:49.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:49.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:49.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:49.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.587][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:49.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:49.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:49.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:49.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:49.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:49.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:49.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:49.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:49.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:49.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:49.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:49.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:49.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:49.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:49.643][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-10-31 21:41:49.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:49.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:49.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:49.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:49.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:49.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:49.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:49.670][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:49.672][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:49.674][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:49.685][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:49.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:49.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:49.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:49.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:49.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:49.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.703][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:49.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:49.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.711][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:49.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:49.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:49.719][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:49.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:49.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:49.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:49.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:49.740][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:49.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:49.745][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-10-31 21:41:49.748][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:49.752][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:49.765][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-10-31 21:41:49.777][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:49.786][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:49.790][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:49.794][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:49.797][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:49.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:49.811][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:49.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:49.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:49.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:49.823][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:49.826][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:49.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.830][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.833][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:49.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:49.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.841][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:49.844][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:49.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.847][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.850][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:49.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:49.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.859][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:49.861][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:49.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.865][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.868][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:49.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:49.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.876][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:49.878][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:49.880][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.882][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.885][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:49.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:49.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.919][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:49.922][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:49.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.927][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.930][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:49.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:49.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.940][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:49.942][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:49.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.946][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.949][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:49.951][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:49.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.955][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.958][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:49.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:49.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.968][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:49.970][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:49.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.974][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:49.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:49.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.986][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:49.989][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:49.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:49.992][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:49.995][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:49.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:49.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.002][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:50.004][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:50.006][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.008][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.011][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:50.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:50.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.021][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:50.023][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:50.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.026][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.029][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:50.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:50.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:50.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:50.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:50.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:50.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:50.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:50.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.059][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:50.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:50.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:50.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:50.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:50.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:50.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:50.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:50.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:50.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:50.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.112][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:50.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:50.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.141][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:50.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:50.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:50.165][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-10-31 21:41:50.169][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 21:41:50.264][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 21:41:50.271][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:50.279][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-31 21:41:50.282][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:50.290][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:50.292][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:50.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:50.307][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:50.310][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:50.313][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:50.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:50.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:50.344][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:50.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:50.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:50.392][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:50.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:50.398][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:50.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:50.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.416][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.435][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.450][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:50.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:50.459][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:50.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:50.477][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:50.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:50.483][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:50.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:50.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.494][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.501][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.507][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:50.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:50.525][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:50.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:50.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:50.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:50.545][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:50.548][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:50.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.580][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:50.598][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:50.600][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:50.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:50.617][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:50.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:50.621][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:50.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:50.626][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.638][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:50.643][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:50.645][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:50.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:50.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:50.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:50.662][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:50.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:50.667][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.686][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:50.698][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:50.700][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:50.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:50.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:50.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:50.724][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:50.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:50.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.740][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:50.779][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:50.783][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:50.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:50.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:50.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:50.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:50.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:50.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.829][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:50.838][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:50.840][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:50.842][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:50.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:50.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:50.861][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:50.864][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:50.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:50.900][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:50.902][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:50.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:50.918][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:50.922][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:50.925][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:50.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:50.932][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.942][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.951][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:50.960][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:50.961][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:50.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:50.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:50.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:50.980][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:50.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:50.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:50.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:50.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:50.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.008][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:51.019][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:51.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:51.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:51.039][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:51.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:51.046][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:51.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:51.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.064][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:51.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:51.086][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:51.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:51.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:51.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:51.107][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:51.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:51.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.123][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:51.142][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:51.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:51.146][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:51.160][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:51.163][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:51.166][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:51.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:51.171][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.180][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:51.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:51.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:51.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:51.240][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:51.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:51.245][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:51.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:51.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.259][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.267][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:51.275][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:51.277][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:51.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:51.290][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:51.293][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:51.295][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:51.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:51.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.319][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:51.329][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:51.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:51.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:51.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:51.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:51.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:51.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:51.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.385][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:51.396][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:51.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:51.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:51.415][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:51.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:51.421][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:51.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:51.427][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.447][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:51.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:51.461][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:51.463][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:51.477][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:51.480][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:51.482][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:51.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:51.488][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.510][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:51.519][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:51.522][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:51.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:51.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:51.544][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:51.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:51.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:51.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.576][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 21:41:51.646][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 21:41:51.655][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:51.665][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-31 21:41:51.669][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:51.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:51.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:51.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:51.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:51.744][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:51.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:51.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:51.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.763][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:51.783][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:51.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:51.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:51.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:51.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:51.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:51.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:51.813][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.835][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.845][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:51.865][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:51.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:51.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:51.885][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:51.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:51.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:51.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:51.899][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.912][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:51.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:51.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:51.957][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:51.959][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:51.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:51.979][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:51.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:51.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:51.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:51.993][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:51.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.039][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:52.050][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:52.052][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:52.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:52.069][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:52.072][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:52.074][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:52.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:52.080][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:52.109][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:52.111][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:52.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:52.130][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:52.133][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:52.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:52.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:52.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:52.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:52.194][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:52.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:52.210][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:52.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:52.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:52.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:52.221][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.231][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:52.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:52.250][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:52.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:52.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:52.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:52.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:52.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:52.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.273][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.279][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:52.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:52.286][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:52.287][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:52.296][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:52.298][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:52.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:52.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:52.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.314][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:52.321][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:52.322][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:52.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:52.333][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:52.334][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:52.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:52.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:52.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:52.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:52.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:52.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:52.369][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:52.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:52.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:52.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:52.375][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.382][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.388][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:52.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:52.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:52.396][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:52.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:52.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:52.408][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:52.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:52.411][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:52.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:52.430][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:52.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:52.440][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:52.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:52.444][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:52.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:52.448][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:52.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:52.467][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:52.494][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:52.507][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:52.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:52.510][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:52.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:52.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.519][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:52.530][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:52.531][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:52.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:52.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:52.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:52.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:52.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:52.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.550][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.555][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:52.561][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:52.562][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:52.563][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:52.571][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:52.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:52.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:52.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:52.578][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:52.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:52.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:52.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:52.606][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:52.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:52.609][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:52.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:52.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:52.630][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:52.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:52.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:52.641][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:52.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:52.645][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:52.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:52.648][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.661][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:52.667][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:52.668][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:52.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:52.678][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:52.680][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:52.681][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:52.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:52.684][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.696][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:52.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:52.703][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:52.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:52.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:52.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:52.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:52.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:52.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:52.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.781][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-31 21:41:52.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-31 21:41:52.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-31 21:41:52.804][biodb::testThat]
biodb.INFO [2025-10-31 21:41:52.806][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-10-31 21:41:52.808][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:52.809][biodb::testThat]
biodb.TRACE[2025-10-31 21:41:52.815][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-31 21:41:52.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-31 21:41:52.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.821][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.827][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.833][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.839][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:52.850][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:52.851][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:52.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:52.861][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:52.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:52.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:52.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-31 21:41:52.871][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 21:41:52.875][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:52.878][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-31 21:41:52.880][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:52.885][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:52.886][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:52.887][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:52.896][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:52.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:52.899][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:52.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:52.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 21:41:52.923][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 21:41:52.928][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:52.931][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-31 21:41:52.933][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:52.937][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:52.938][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:52.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:52.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:52.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:52.952][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:52.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:52.955][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:52.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:52.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:52.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:52.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:52.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:52.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:52.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:52.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:52.994][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:52.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:52.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.000][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:53.006][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-31 21:41:53.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:53.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:53.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:53.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:53.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:53.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:53.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:53.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.057][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.060][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 21:41:53.062][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 21:41:53.065][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 21:41:53.067][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.069][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.070][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.073][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.075][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.076][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.079][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.081][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.082][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.084][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.085][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.088][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.089][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 21:41:53.091][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.102][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.122][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-31 21:41:53.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:53.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:53.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:53.133][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:53.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:53.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:53.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:53.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.146][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.152][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.154][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 21:41:53.155][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 21:41:53.157][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 21:41:53.158][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.160][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.161][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.163][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.164][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.166][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.167][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.170][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.172][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.173][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.175][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.176][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.179][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.181][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 21:41:53.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.195][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.201][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-31 21:41:53.203][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:53.204][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:53.206][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:53.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:53.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:53.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:53.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:53.218][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.228][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.229][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 21:41:53.230][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 21:41:53.231][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 21:41:53.232][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.233][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.234][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.237][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.238][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.239][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.242][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.243][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.244][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.245][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.246][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.248][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.249][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 21:41:53.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.254][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.264][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-31 21:41:53.265][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-31 21:41:53.266][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-31 21:41:53.286][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.292][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.300][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:53.360][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:53.361][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:53.362][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:53.367][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:53.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:53.369][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:53.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-31 21:41:53.372][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 21:41:53.375][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:53.377][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-31 21:41:53.378][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-31 21:41:53.381][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 21:41:53.384][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:53.387][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-31 21:41:53.388][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:53.390][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:53.391][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:53.392][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:53.397][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:53.398][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:53.399][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:53.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:53.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.409][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:53.413][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:53.414][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:53.415][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:53.420][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:53.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:53.422][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:53.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:53.424][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.429][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.433][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:53.437][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:53.444][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:53.445][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:53.451][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:53.452][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:53.453][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:53.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:53.455][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:53.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:53.494][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-31 21:41:53.522][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:53.523][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:53.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:53.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:53.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:53.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:53.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:53.535][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.544][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.545][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 21:41:53.546][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 21:41:53.547][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 21:41:53.548][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.549][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.551][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.553][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.554][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.555][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.557][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.558][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.560][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.561][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.562][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.564][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.565][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 21:41:53.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.578][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-31 21:41:53.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:53.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:53.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:53.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:53.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:53.588][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:53.588][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[2025-10-31 21:41:53.610][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.640][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.642][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 21:41:53.643][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 21:41:53.644][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 21:41:53.645][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.646][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.647][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.648][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.649][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.650][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.651][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.653][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.654][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.665][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.667][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.668][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.670][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.671][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 21:41:53.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.685][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-31 21:41:53.686][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:53.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:53.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:53.693][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:53.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:53.695][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:53.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:53.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.706][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.707][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 21:41:53.708][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 21:41:53.709][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 21:41:53.710][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.711][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.712][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.714][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.715][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.716][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.718][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.719][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.721][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.722][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.723][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.725][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.726][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 21:41:53.727][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.735][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.740][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-31 21:41:53.741][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-31 21:41:53.742][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-31 21:41:53.751][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-31 21:41:53.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-31 21:41:53.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-31 21:41:53.758][biodb::testThat]
biodb.INFO [2025-10-31 21:41:53.759][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-10-31 21:41:53.760][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:53.766][biodb::testThat]
biodb.TRACE[2025-10-31 21:41:53.770][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-31 21:41:53.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-31 21:41:53.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.774][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.779][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.783][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:53.795][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:53.796][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:53.797][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:53.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:53.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:53.804][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:53.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-31 21:41:53.808][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 21:41:53.811][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:53.813][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-31 21:41:53.815][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:53.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:53.819][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:53.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:53.825][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:53.827][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:53.828][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:53.829][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:53.830][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.835][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.840][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 21:41:53.845][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 21:41:53.848][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:53.851][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-31 21:41:53.852][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:53.854][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:53.855][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:53.856][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:53.862][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:53.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:53.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:53.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:53.866][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.875][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:53.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:53.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:53.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:53.887][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:53.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:53.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:53.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:53.891][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.896][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.900][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:53.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:53.904][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-31 21:41:53.906][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:53.906][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:53.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:53.912][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:53.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:53.914][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:53.915][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:53.916][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.920][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.925][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.926][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 21:41:53.927][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 21:41:53.928][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 21:41:53.929][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.930][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.931][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.933][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.934][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.935][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.937][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.938][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.939][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.940][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.941][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.942][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.943][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.951][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 21:41:53.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.958][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.962][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.966][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-31 21:41:53.968][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:53.968][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:53.969][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:53.975][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:53.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:53.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:53.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:53.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:53.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:53.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:53.994][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:53.996][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 21:41:53.998][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 21:41:54.000][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 21:41:54.002][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.004][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.006][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.009][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.011][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.014][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.018][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.020][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.022][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.029][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.032][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.045][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.052][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 21:41:54.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.122][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-31 21:41:54.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:54.134][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:54.141][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:54.159][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:54.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:54.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:54.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:54.172][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.188][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.206][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.213][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 21:41:54.218][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 21:41:54.220][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 21:41:54.228][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.235][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.240][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.254][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.262][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.269][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.276][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.283][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.291][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.293][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.295][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.303][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.319][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.322][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 21:41:54.325][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.361][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-31 21:41:54.363][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-31 21:41:54.365][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-31 21:41:54.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.402][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:54.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:54.428][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:54.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:54.443][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:54.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:54.449][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:54.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-31 21:41:54.478][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 21:41:54.484][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:54.489][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-31 21:41:54.491][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-31 21:41:54.497][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 21:41:54.502][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:54.505][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-31 21:41:54.507][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:54.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:54.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:54.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:54.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:54.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:54.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:54.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:54.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.525][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.529][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:54.533][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:54.534][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:54.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:54.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:54.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:54.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:54.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:54.544][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:54.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:54.556][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:54.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:54.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:54.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:54.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:54.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:54.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.570][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:54.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:54.578][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-31 21:41:54.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:54.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:54.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:54.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:54.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:54.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:54.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:54.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.593][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.597][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.598][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 21:41:54.599][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 21:41:54.600][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 21:41:54.601][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.602][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.603][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.605][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.606][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.607][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.608][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.609][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.610][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.611][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.612][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.614][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.615][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 21:41:54.616][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.628][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-31 21:41:54.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:54.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:54.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:54.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:54.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:54.637][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:54.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:54.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.647][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.648][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 21:41:54.654][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 21:41:54.655][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 21:41:54.656][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.657][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.659][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.660][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.661][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.662][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.663][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.664][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.665][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.666][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.667][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.668][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.670][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.671][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 21:41:54.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.684][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-31 21:41:54.685][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:54.686][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:54.687][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:54.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:54.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:54.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:54.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:54.695][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.699][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.703][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.704][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 21:41:54.705][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 21:41:54.706][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 21:41:54.707][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.708][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.709][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.710][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.711][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.712][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.714][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.715][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.716][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.717][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.718][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.720][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.721][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 21:41:54.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.734][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-31 21:41:54.735][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-31 21:41:54.735][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-31 21:41:54.744][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-31 21:41:54.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-31 21:41:54.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-31 21:41:54.751][biodb::testThat]
biodb.INFO [2025-10-31 21:41:54.752][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-10-31 21:41:54.753][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:54.754][biodb::testThat]
biodb.TRACE[2025-10-31 21:41:54.757][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-31 21:41:54.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-31 21:41:54.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.761][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:54.780][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:54.781][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:54.782][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:54.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:54.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:54.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:54.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-31 21:41:54.792][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 21:41:54.794][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:54.796][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-31 21:41:54.797][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:54.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:54.800][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:54.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:54.806][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:54.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:54.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:54.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:54.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.823][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-31 21:41:54.827][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 21:41:54.830][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:54.832][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-31 21:41:54.833][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:54.835][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:54.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:54.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:54.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:54.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:54.843][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:54.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:54.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.849][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.853][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:54.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:54.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:54.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:54.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:54.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:54.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:54.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:54.867][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.875][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:54.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:54.879][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-31 21:41:54.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:54.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:54.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:54.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:54.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:54.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:54.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:54.890][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.898][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.899][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 21:41:54.900][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 21:41:54.901][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 21:41:54.901][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.902][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.903][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.905][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.906][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.907][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.909][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.910][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.911][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.912][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.913][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.915][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.916][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 21:41:54.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.921][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.929][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-31 21:41:54.930][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:54.931][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:54.931][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:54.936][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:54.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:54.938][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:54.938][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:54.940][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.947][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.948][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 21:41:54.949][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 21:41:54.950][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 21:41:54.951][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.952][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.953][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.955][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.956][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.957][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.958][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.959][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.959][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.960][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:54.961][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.962][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.968][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.970][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 21:41:54.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.979][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.983][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-31 21:41:54.984][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:54.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:54.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:54.990][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:54.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:54.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:54.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:54.994][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:54.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:54.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:54.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.002][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:55.002][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 21:41:55.003][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 21:41:55.004][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 21:41:55.005][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:55.006][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.007][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.009][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.010][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.011][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.012][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.013][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.014][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:55.015][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:55.016][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.017][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.019][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.019][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 21:41:55.020][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.032][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-31 21:41:55.033][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-31 21:41:55.034][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-31 21:41:55.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.056][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.063][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:55.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:55.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:55.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:55.077][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:55.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:55.078][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:55.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-31 21:41:55.082][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 21:41:55.084][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:55.086][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-31 21:41:55.087][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-31 21:41:55.090][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-31 21:41:55.092][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:55.094][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-31 21:41:55.095][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:55.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:55.099][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:55.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:55.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:55.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:55.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:55.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:55.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.111][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.115][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:55.119][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:55.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:55.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:55.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:55.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:55.132][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:55.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:55.134][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.138][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:55.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:55.147][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:55.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:55.152][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:55.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:55.154][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:55.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:55.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:55.167][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-31 21:41:55.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:55.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:55.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:55.175][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:55.176][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:55.177][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:55.178][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:55.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.183][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.187][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:55.187][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 21:41:55.188][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 21:41:55.189][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 21:41:55.190][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:55.191][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.192][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.194][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.195][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.196][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.198][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.199][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:55.200][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:55.201][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.202][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.203][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.204][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 21:41:55.205][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.213][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.217][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-31 21:41:55.218][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:55.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:55.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:55.224][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:55.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:55.226][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:55.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:55.228][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.236][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:55.237][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 21:41:55.238][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 21:41:55.238][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 21:41:55.239][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:55.240][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.241][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.243][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.244][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.245][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.247][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.248][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:55.249][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:55.250][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.251][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.253][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.254][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 21:41:55.255][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.259][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.263][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.267][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-31 21:41:55.268][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:55.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:55.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:55.280][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:55.281][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:55.282][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:55.283][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:55.285][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.292][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:55.293][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-31 21:41:55.294][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-31 21:41:55.295][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-31 21:41:55.296][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:55.297][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.298][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.300][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.301][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.302][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.304][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.305][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:55.306][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-31 21:41:55.306][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.307][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.309][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.310][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-31 21:41:55.311][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.323][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-31 21:41:55.324][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-31 21:41:55.325][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-31 21:41:55.343][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-31 21:41:55.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-31 21:41:55.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-31 21:41:55.349][biodb::testThat]
biodb.INFO [2025-10-31 21:41:55.350][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-10-31 21:41:55.351][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:55.352][biodb::testThat]
biodb.DEBUG[2025-10-31 21:41:55.354][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-10-31 21:41:55.355][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:55.356][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:55.359][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-10-31 21:41:55.360][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:55.361][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:55.362][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:55.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:55.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:55.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:55.370][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:55.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:55.372][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:55.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:55.375][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.376][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.377][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.379][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.383][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:55.384][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:55.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.385][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.387][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:55.388][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:55.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.389][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.391][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:55.392][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:55.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.394][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.395][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:55.396][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:55.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.398][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.399][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:55.400][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:55.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.402][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.403][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:55.404][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:55.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.406][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.408][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.409][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.411][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.412][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:55.413][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:55.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.415][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.417][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:55.418][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:55.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.420][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.421][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:55.422][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:55.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.424][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.454][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:55.469][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-10-31 21:41:55.470][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-10-31 21:41:55.478][biodb::testThat]
biodb.INFO [2025-10-31 21:41:55.479][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-10-31 21:41:55.480][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:55.480][biodb::testThat]
biodb.DEBUG[2025-10-31 21:41:55.489][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-10-31 21:41:55.490][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-10-31 21:41:55.491][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-10-31 21:41:55.493][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:55.495][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-10-31 21:41:55.498][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-10-31 21:41:55.502][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-10-31 21:41:55.503][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:55.505][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-10-31 21:41:55.506][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:55.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:55.508][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:55.509][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:55.514][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:55.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:55.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:55.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:55.519][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.520][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.522][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.527][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:55.528][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:55.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.530][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.531][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:55.532][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:55.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.534][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.535][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:55.536][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:55.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.538][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.539][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:55.540][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:55.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.542][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.543][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:55.544][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:55.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.546][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.547][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:55.548][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:55.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.550][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.551][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.552][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.554][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.555][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:55.556][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:55.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.558][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.559][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:55.560][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:55.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.562][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.563][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:55.564][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:55.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.566][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.567][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:55.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:55.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:55.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:55.607][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:55.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:55.609][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:55.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:55.612][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.613][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.615][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.620][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:55.621][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:55.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.623][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.624][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:55.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:55.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.628][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:55.629][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:55.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.631][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.633][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:55.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:55.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.637][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:55.638][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:55.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.639][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.641][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:55.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:55.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.645][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:55.646][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:55.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.648][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.649][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:55.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:55.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.653][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:55.654][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:55.655][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.656][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.657][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:55.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:55.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.661][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:55.662][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:55.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.664][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.665][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:55.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:55.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.669][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.670][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.672][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.677][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:55.678][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:55.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.680][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.682][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:55.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:55.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.686][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:55.687][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:55.687][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.688][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.690][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:55.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:55.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.693][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:55.694][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:55.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.696][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.698][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:55.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:55.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.709][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.717][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:55.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:55.730][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:55.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:55.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:55.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:55.737][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:55.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:55.740][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.741][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.742][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.743][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.749][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:55.750][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:55.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.757][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.759][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:55.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:55.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.764][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:55.765][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:55.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.767][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.768][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:55.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:55.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.772][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:55.773][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:55.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.775][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.776][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:55.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:55.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.780][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:55.781][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:55.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.783][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.784][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:55.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:55.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.788][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:55.789][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:55.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.791][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.792][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:55.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:55.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.796][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:55.797][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:55.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.799][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.800][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:55.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:55.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.804][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.805][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.807][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.812][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:55.813][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:55.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.815][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.816][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:55.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:55.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.820][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:55.821][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:55.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.823][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.824][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:55.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:55.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.828][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:55.829][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:55.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.831][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.832][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:55.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:55.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.840][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.844][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:55.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.868][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.875][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.883][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.891][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:55.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:55.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:55.899][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-10-31 21:41:55.900][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-10-31 21:41:55.901][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-10-31 21:41:55.919][biodb::testThat]
biodb.INFO [2025-10-31 21:41:55.921][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-10-31 21:41:55.921][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:55.922][biodb::testThat]
biodb.INFO [2025-10-31 21:41:55.945][biodb::testThat]
biodb.INFO [2025-10-31 21:41:55.946][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-10-31 21:41:55.947][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:55.948][biodb::testThat]
biodb.INFO [2025-10-31 21:41:55.955][biodb::testThat]
biodb.INFO [2025-10-31 21:41:55.956][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-10-31 21:41:55.957][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:55.958][biodb::testThat]
sched.DEBUG[2025-10-31 21:41:55.960][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-10-31 21:41:55.963][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:55.969][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-10-31 21:41:55.970][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-31 21:41:55.981][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:55.982][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:55.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.984][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:55.986][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.987][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:55.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:55.989][ef$get] fields variable is a list.
biodb.INFO [2025-10-31 21:41:55.990][biodb::testThat]
biodb.INFO [2025-10-31 21:41:55.991][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-10-31 21:41:55.992][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:55.993][biodb::testThat]
biodb.ERROR[2025-10-31 21:41:56.006][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-10-31 21:41:56.021][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-10-31 21:41:56.033][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-31 21:41:56.034][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-31 21:41:56.035][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-31 21:41:56.036][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:56.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:56.038][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.040][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-31 21:41:56.051][biodb::testContext]
biodb.INFO [2025-10-31 21:41:56.052][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-31 21:41:56.053][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-10-31 21:41:56.054][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-31 21:41:56.055][biodb::testContext]
biodb.INFO [2025-10-31 21:41:56.057][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-10-31 21:41:56.059][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-31 21:41:56.063][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 21:41:56.064][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-31 21:41:56.065][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-31 21:41:56.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.067][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[2025-10-31 21:41:56.068][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-31 21:41:56.076][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-31 21:41:56.077][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.078][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.080][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-31 21:41:56.081][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-31 21:41:56.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.085][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-31 21:41:56.086][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-31 21:41:56.087][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-31 21:41:56.088][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.090][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-31 21:41:56.091][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-31 21:41:56.092][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-31 21:41:56.093][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.094][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.095][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[2025-10-31 21:41:56.096][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-31 21:41:56.097][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-31 21:41:56.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.100][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-31 21:41:56.101][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-31 21:41:56.102][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-31 21:41:56.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.106][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-31 21:41:56.107][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-31 21:41:56.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.111][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-31 21:41:56.112][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-31 21:41:56.113][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-31 21:41:56.114][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.117][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-31 21:41:56.118][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-31 21:41:56.119][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-31 21:41:56.120][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-31 21:41:56.121][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-31 21:41:56.122][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-31 21:41:56.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.125][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-31 21:41:56.126][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-31 21:41:56.127][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.128][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.129][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.130][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-31 21:41:56.131][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-31 21:41:56.132][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.135][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-31 21:41:56.136][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-31 21:41:56.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.139][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-31 21:41:56.140][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-31 21:41:56.141][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-31 21:41:56.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.145][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-31 21:41:56.146][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-31 21:41:56.150][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-31 21:41:56.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.153][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[2025-10-31 21:41:56.154][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-31 21:41:56.155][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-31 21:41:56.156][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-31 21:41:56.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.160][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-31 21:41:56.161][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:56.162][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-31 21:41:56.163][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:56.164][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 21:41:56.165][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:56.166][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 21:41:56.167][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:56.168][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 21:41:56.169][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-31 21:41:56.170][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 21:41:56.171][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:56.172][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-31 21:41:56.173][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 21:41:56.174][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:56.175][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:56.176][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 21:41:56.176][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 21:41:56.176][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 21:41:56.176][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-31 21:41:56.176][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-31 21:41:56.177][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 21:41:56.178][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:56.179][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:56.180][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 21:41:56.182][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:56.183][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:56.185][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 21:41:56.187][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:56.188][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 21:41:56.190][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 21:41:56.192][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:56.193][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:56.196][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-31 21:41:56.199][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:56.201][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-31 21:41:56.203][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:56.205][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 21:41:56.207][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:56.209][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 21:41:56.211][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:56.213][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 21:41:56.215][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-31 21:41:56.217][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 21:41:56.219][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:56.222][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-31 21:41:56.225][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 21:41:56.228][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:56.231][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:56.235][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 21:41:56.235][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 21:41:56.235][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 21:41:56.235][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-31 21:41:56.235][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-31 21:41:56.238][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 21:41:56.241][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:56.243][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:56.245][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 21:41:56.246][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:56.248][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:56.249][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 21:41:56.251][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:56.252][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 21:41:56.254][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 21:41:56.256][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:56.258][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:56.260][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-31 21:41:56.263][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:56.265][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-31 21:41:56.267][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:56.268][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 21:41:56.270][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:56.272][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 21:41:56.286][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:56.288][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 21:41:56.291][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-31 21:41:56.293][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 21:41:56.294][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:56.296][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-31 21:41:56.298][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 21:41:56.299][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:56.301][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:56.302][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:56.304][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 21:41:56.305][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:56.307][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:56.308][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 21:41:56.310][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:56.311][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:56.312][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 21:41:56.314][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:56.315][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 21:41:56.317][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 21:41:56.318][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:56.320][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:56.321][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-31 21:41:56.324][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:56.326][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-31 21:41:56.328][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:56.329][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 21:41:56.331][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:56.332][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 21:41:56.334][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:56.335][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 21:41:56.337][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-31 21:41:56.338][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 21:41:56.340][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:56.341][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-31 21:41:56.343][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 21:41:56.344][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:56.346][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:56.347][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:56.349][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 21:41:56.350][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:56.352][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:56.353][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 21:41:56.355][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:56.356][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:56.358][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 21:41:56.359][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:56.361][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 21:41:56.362][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 21:41:56.364][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:56.366][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:56.368][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 21:41:56.369][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.373][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.377][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.382][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.389][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.392][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.415][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.418][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.419][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.440][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.443][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.453][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.460][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[2025-10-31 21:41:56.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.481][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.484][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.485][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-31 21:41:56.488][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-31 21:41:56.491][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-31 21:41:56.494][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-31 21:41:56.497][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-31 21:41:56.499][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-31 21:41:56.501][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-31 21:41:56.504][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-31 21:41:56.507][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-31 21:41:56.510][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-31 21:41:56.513][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-31 21:41:56.515][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-31 21:41:56.519][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-31 21:41:56.522][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-31 21:41:56.526][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-31 21:41:56.559][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-31 21:41:56.566][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-31 21:41:56.573][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-31 21:41:56.577][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-31 21:41:56.582][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-31 21:41:56.586][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-31 21:41:56.590][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-31 21:41:56.595][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-31 21:41:56.599][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-31 21:41:56.603][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-31 21:41:56.607][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-31 21:41:56.610][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-31 21:41:56.615][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-31 21:41:56.619][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-31 21:41:56.622][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-31 21:41:56.626][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-31 21:41:56.629][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-31 21:41:56.634][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-31 21:41:56.637][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-31 21:41:56.641][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-31 21:41:56.644][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-31 21:41:56.648][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-31 21:41:56.650][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-31 21:41:56.654][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-31 21:41:56.657][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-31 21:41:56.660][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-31 21:41:56.664][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-31 21:41:56.667][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-31 21:41:56.670][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-31 21:41:56.673][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-31 21:41:56.677][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-31 21:41:56.680][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-31 21:41:56.683][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-31 21:41:56.687][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-31 21:41:56.689][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-31 21:41:56.693][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-31 21:41:56.696][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-31 21:41:56.699][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-31 21:41:56.701][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-31 21:41:56.704][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-31 21:41:56.707][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-31 21:41:56.710][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-31 21:41:56.714][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-31 21:41:56.717][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-31 21:41:56.721][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-31 21:41:56.724][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-31 21:41:56.727][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-31 21:41:56.731][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-31 21:41:56.734][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-31 21:41:56.739][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-31 21:41:56.742][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-31 21:41:56.745][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-31 21:41:56.747][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-31 21:41:56.749][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-31 21:41:56.750][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-31 21:41:56.752][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-31 21:41:56.754][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-31 21:41:56.755][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-31 21:41:56.757][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-31 21:41:56.758][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-31 21:41:56.760][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-31 21:41:56.761][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-31 21:41:56.763][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-31 21:41:56.764][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-31 21:41:56.766][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-31 21:41:56.767][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-31 21:41:56.769][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-31 21:41:56.770][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-31 21:41:56.772][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-31 21:41:56.773][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-10-31 21:41:56.774][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 21:41:56.775][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.777][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.778][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.DEBUG[2025-10-31 21:41:56.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:56.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:56.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.785][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[2025-10-31 21:41:56.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:56.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:56.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.791][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[2025-10-31 21:41:56.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:56.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:56.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.797][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.798][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:56.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:56.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:56.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:56.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:56.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:56.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:56.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:56.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:56.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:56.816][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[2025-10-31 21:41:56.817][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:56.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:56.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:56.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.002][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.003][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.DEBUG[2025-10-31 21:41:57.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.015][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[2025-10-31 21:41:57.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.041][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.043][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.045][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[2025-10-31 21:41:57.045][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.047][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.049][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.050][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[2025-10-31 21:41:57.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.058][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-31 21:41:57.059][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-31 21:41:57.061][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:57.062][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-31 21:41:57.063][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.064][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 21:41:57.065][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.066][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 21:41:57.067][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.068][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-31 21:41:57.068][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-31 21:41:57.069][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 21:41:57.070][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.071][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-31 21:41:57.072][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 21:41:57.073][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-31 21:41:57.073][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-31 21:41:57.073][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-31 21:41:57.073][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-31 21:41:57.073][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-31 21:41:57.073][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-31 21:41:57.073][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-31 21:41:57.073][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-31 21:41:57.073][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-31 21:41:57.073][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-31 21:41:57.073][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-31 21:41:57.074][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:57.075][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 21:41:57.075][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 21:41:57.075][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 21:41:57.076][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-31 21:41:57.077][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:57.078][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:57.079][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 21:41:57.080][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:57.080][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:57.081][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 21:41:57.082][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-31 21:41:57.082][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-31 21:41:57.083][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 21:41:57.084][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 21:41:57.085][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.086][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-31 21:41:57.086][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-31 21:41:57.087][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-31 21:41:57.089][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-31 21:41:57.090][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-31 21:41:57.092][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-31 21:41:57.093][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-31 21:41:57.095][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-31 21:41:57.098][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-31 21:41:57.101][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-31 21:41:57.102][biodb::testThat]
biodb.INFO [2025-10-31 21:41:57.103][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-10-31 21:41:57.104][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:57.105][biodb::testThat]
sched.DEBUG[2025-10-31 21:41:57.108][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-31 21:41:57.110][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:57.115][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-31 21:41:57.116][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-31 21:41:57.120][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 [2025-10-31 21:41:57.122][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:57.125][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-31 21:41:57.126][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:57.127][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:57.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.129][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.134][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.136][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-31 21:41:57.138][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 [2025-10-31 21:41:57.141][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:57.143][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-31 21:41:57.144][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:57.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:57.147][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.152][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.153][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.154][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.155][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.172][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:57.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.182][FUN] Functions in observer 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[2025-10-31 21:41:57.187][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 [2025-10-31 21:41:57.190][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:57.192][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-31 21:41:57.193][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:57.195][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:57.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.201][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.203][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.204][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".
sched.DEBUG[2025-10-31 21:41:57.205][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 [2025-10-31 21:41:57.208][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:57.210][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-31 21:41:57.211][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:57.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:57.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.220][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.222][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.223][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.224][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:57.225][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.226][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.232][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.233][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.234][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-31 21:41:57.238][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 [2025-10-31 21:41:57.240][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:57.242][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-31 21:41:57.244][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:57.245][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:57.246][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.252][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.254][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-31 21:41:57.257][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 [2025-10-31 21:41:57.260][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:57.262][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-31 21:41:57.263][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:57.265][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:57.266][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.267][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.272][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.274][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.275][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".
sched.DEBUG[2025-10-31 21:41:57.278][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 [2025-10-31 21:41:57.280][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:57.283][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-10-31 21:41:57.284][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:57.286][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:57.287][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.293][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.294][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.295][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-31 21:41:57.303][biodb::testThat]
biodb.INFO [2025-10-31 21:41:57.305][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-10-31 21:41:57.306][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:57.307][biodb::testThat]
sched.DEBUG[2025-10-31 21:41:57.310][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 [2025-10-31 21:41:57.313][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:57.321][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-10-31 21:41:57.322][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:57.323][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:57.324][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.325][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.329][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.332][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".
sched.DEBUG[2025-10-31 21:41:57.335][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 [2025-10-31 21:41:57.338][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:57.340][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-10-31 21:41:57.341][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:57.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:57.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.351][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.INFO [2025-10-31 21:41:57.355][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-31 21:41:57.356][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-31 21:41:57.357][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-31 21:41:57.358][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.360][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.361][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-31 21:41:57.365][biodb::testContext]
biodb.INFO [2025-10-31 21:41:57.366][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-31 21:41:57.367][biodb::testContext] Test context - Test web services
biodb.INFO [2025-10-31 21:41:57.368][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-31 21:41:57.369][biodb::testContext]
biodb.INFO [2025-10-31 21:41:57.371][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-10-31 21:41:57.372][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-31 21:41:57.376][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 21:41:57.377][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-31 21:41:57.378][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-31 21:41:57.379][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.381][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-31 21:41:57.382][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-31 21:41:57.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.386][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-31 21:41:57.387][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-31 21:41:57.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.390][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-31 21:41:57.391][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-31 21:41:57.392][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-31 21:41:57.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.394][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[2025-10-31 21:41:57.395][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-31 21:41:57.396][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-31 21:41:57.397][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-31 21:41:57.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.400][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.401][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-31 21:41:57.402][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-31 21:41:57.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.405][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-31 21:41:57.406][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-31 21:41:57.407][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-31 21:41:57.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.410][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-31 21:41:57.411][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-31 21:41:57.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.415][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-31 21:41:57.416][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-31 21:41:57.417][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-31 21:41:57.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.420][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-31 21:41:57.421][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-31 21:41:57.422][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-31 21:41:57.423][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-31 21:41:57.424][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-31 21:41:57.425][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-31 21:41:57.426][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.428][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-31 21:41:57.429][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-31 21:41:57.430][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.433][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-31 21:41:57.434][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-31 21:41:57.435][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.437][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-31 21:41:57.438][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-31 21:41:57.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.442][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-31 21:41:57.443][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-31 21:41:57.444][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-31 21:41:57.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.446][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[2025-10-31 21:41:57.447][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-31 21:41:57.448][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-31 21:41:57.451][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-31 21:41:57.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.454][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.455][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-31 21:41:57.456][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-31 21:41:57.457][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-31 21:41:57.458][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.459][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[2025-10-31 21:41:57.460][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-31 21:41:57.462][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:57.463][self$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[2025-10-31 21:41:57.464][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.465][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 21:41:57.466][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.467][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 21:41:57.468][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:57.469][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 21:41:57.470][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-31 21:41:57.471][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 21:41:57.472][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.473][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-31 21:41:57.474][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 21:41:57.475][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:57.475][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.476][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 21:41:57.476][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 21:41:57.476][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 21:41:57.476][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-31 21:41:57.476][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-31 21:41:57.477][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 21:41:57.478][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:57.479][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:57.480][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 21:41:57.481][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:57.482][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:57.483][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 21:41:57.484][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:57.485][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 21:41:57.486][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 21:41:57.487][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:57.488][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:57.489][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-31 21:41:57.490][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:57.491][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-31 21:41:57.492][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.493][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 21:41:57.494][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.495][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 21:41:57.496][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:57.497][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 21:41:57.498][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-31 21:41:57.499][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 21:41:57.500][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.501][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-31 21:41:57.502][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 21:41:57.503][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:57.504][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.505][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 21:41:57.505][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 21:41:57.505][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 21:41:57.505][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-31 21:41:57.505][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-31 21:41:57.506][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 21:41:57.506][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:57.507][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:57.508][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 21:41:57.509][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:57.510][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:57.511][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 21:41:57.512][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:57.513][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 21:41:57.514][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 21:41:57.515][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:57.515][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:57.517][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-31 21:41:57.518][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.519][self$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[2025-10-31 21:41:57.520][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.521][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 21:41:57.522][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.523][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 21:41:57.524][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:57.525][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 21:41:57.526][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-31 21:41:57.527][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 21:41:57.528][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:57.529][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-31 21:41:57.530][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 21:41:57.531][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:57.531][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.532][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:57.533][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 21:41:57.534][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:57.535][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:57.536][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 21:41:57.537][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:57.538][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:57.539][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 21:41:57.540][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:57.541][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 21:41:57.542][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 21:41:57.543][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:57.543][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:57.545][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-31 21:41:57.546][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.547][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-31 21:41:57.548][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.549][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 21:41:57.550][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.551][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 21:41:57.552][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:57.553][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 21:41:57.554][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-31 21:41:57.555][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 21:41:57.556][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:57.557][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-31 21:41:57.558][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 21:41:57.559][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:57.560][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.561][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:57.562][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 21:41:57.563][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:57.564][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:57.564][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 21:41:57.565][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:57.566][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:57.567][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 21:41:57.568][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:57.569][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 21:41:57.570][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 21:41:57.571][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:57.572][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:57.573][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 21:41:57.574][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.576][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.580][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.582][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.585][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.588][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.DEBUG[2025-10-31 21:41:57.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.593][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.595][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.619][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.620][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.628][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.633][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.636][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[2025-10-31 21:41:57.636][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.638][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.640][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.641][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.646][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.650][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-31 21:41:57.651][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-31 21:41:57.653][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-31 21:41:57.654][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-31 21:41:57.655][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-31 21:41:57.657][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-31 21:41:57.658][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-31 21:41:57.659][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-31 21:41:57.661][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-31 21:41:57.662][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-31 21:41:57.663][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-31 21:41:57.665][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-31 21:41:57.666][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-31 21:41:57.667][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-31 21:41:57.669][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-31 21:41:57.670][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-31 21:41:57.671][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-31 21:41:57.673][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-31 21:41:57.674][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-31 21:41:57.675][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-31 21:41:57.677][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-31 21:41:57.678][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-31 21:41:57.679][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-31 21:41:57.680][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-31 21:41:57.682][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-31 21:41:57.683][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-31 21:41:57.684][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-31 21:41:57.686][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-31 21:41:57.687][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-31 21:41:57.688][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-31 21:41:57.689][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-31 21:41:57.691][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-31 21:41:57.692][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-31 21:41:57.693][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-31 21:41:57.695][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-31 21:41:57.696][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-31 21:41:57.697][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-31 21:41:57.698][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-31 21:41:57.700][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-31 21:41:57.701][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-31 21:41:57.702][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-31 21:41:57.704][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-31 21:41:57.705][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-31 21:41:57.706][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-31 21:41:57.707][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-31 21:41:57.709][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-31 21:41:57.710][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-31 21:41:57.711][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-31 21:41:57.713][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-31 21:41:57.714][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-31 21:41:57.715][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-31 21:41:57.716][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-31 21:41:57.718][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-31 21:41:57.719][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-31 21:41:57.720][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-31 21:41:57.722][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-31 21:41:57.723][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-31 21:41:57.724][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-31 21:41:57.726][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-31 21:41:57.727][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-31 21:41:57.728][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-31 21:41:57.729][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-31 21:41:57.731][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-31 21:41:57.732][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-31 21:41:57.733][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-31 21:41:57.735][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-31 21:41:57.736][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-31 21:41:57.737][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-31 21:41:57.738][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-31 21:41:57.740][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-31 21:41:57.741][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-31 21:41:57.742][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-31 21:41:57.744][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-31 21:41:57.745][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-31 21:41:57.746][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-31 21:41:57.748][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-31 21:41:57.749][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-31 21:41:57.751][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-31 21:41:57.752][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-31 21:41:57.753][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-31 21:41:57.755][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-31 21:41:57.756][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-31 21:41:57.757][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-31 21:41:57.759][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-31 21:41:57.760][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-10-31 21:41:57.761][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 21:41:57.762][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.763][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.764][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.790][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.795][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.796][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.801][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.802][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.804][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.808][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[2025-10-31 21:41:57.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.818][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.820][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.825][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".
biodb.DEBUG[2025-10-31 21:41:57.826][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.828][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.844][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.846][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.850][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[2025-10-31 21:41:57.851][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.852][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.854][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.856][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.857][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.863][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-31 21:41:57.865][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-31 21:41:57.867][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:57.868][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-31 21:41:57.869][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.870][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 21:41:57.871][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.871][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 21:41:57.872][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.873][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-31 21:41:57.874][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-31 21:41:57.875][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 21:41:57.876][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.877][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-31 21:41:57.878][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 21:41:57.884][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-31 21:41:57.884][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-31 21:41:57.884][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-31 21:41:57.884][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-31 21:41:57.884][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-31 21:41:57.884][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-31 21:41:57.884][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-31 21:41:57.884][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-31 21:41:57.884][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-31 21:41:57.884][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-31 21:41:57.884][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-31 21:41:57.885][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:57.886][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 21:41:57.886][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 21:41:57.886][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 21:41:57.887][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-31 21:41:57.888][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:57.889][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:57.890][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 21:41:57.891][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:57.892][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:57.893][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 21:41:57.893][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-31 21:41:57.893][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-31 21:41:57.894][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 21:41:57.895][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 21:41:57.896][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:57.897][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-31 21:41:57.897][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-31 21:41:57.898][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-31 21:41:57.900][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-31 21:41:57.901][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-31 21:41:57.903][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-31 21:41:57.904][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-31 21:41:57.905][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-31 21:41:57.909][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-31 21:41:57.911][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-31 21:41:57.913][biodb::testThat]
biodb.INFO [2025-10-31 21:41:57.914][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-10-31 21:41:57.914][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:57.915][biodb::testThat]
sched.DEBUG[2025-10-31 21:41:57.918][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-31 21:41:57.920][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:57.925][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-31 21:41:57.926][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-31 21:41:57.929][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-31 21:41:57.932][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:57.934][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-31 21:41:57.935][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-31 21:41:57.942][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-31 21:41:57.943][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-31 21:41:57.944][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-31 21:41:57.945][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:57.946][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:57.946][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:57.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:57.948][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-31 21:41:57.952][biodb::testContext]
biodb.INFO [2025-10-31 21:41:57.953][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-31 21:41:57.954][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-10-31 21:41:57.955][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-31 21:41:57.956][biodb::testContext]
biodb.INFO [2025-10-31 21:41:57.958][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.18.0.
biodb.DEBUG[2025-10-31 21:41:57.959][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-31 21:41:57.963][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 21:41:57.964][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-31 21:41:57.965][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-31 21:41:57.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.968][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-31 21:41:57.969][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-31 21:41:57.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.973][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-31 21:41:57.974][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-31 21:41:57.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.976][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[2025-10-31 21:41:57.977][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-31 21:41:57.978][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-31 21:41:57.979][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-31 21:41:57.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.983][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-31 21:41:57.984][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-31 21:41:57.985][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-31 21:41:57.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.988][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-31 21:41:57.989][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-31 21:41:57.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.993][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-31 21:41:57.994][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-31 21:41:57.995][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-31 21:41:57.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:57.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:57.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:57.998][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-31 21:41:57.999][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-31 21:41:58.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.002][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-31 21:41:58.003][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-31 21:41:58.004][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-31 21:41:58.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.007][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-31 21:41:58.008][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-31 21:41:58.009][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-31 21:41:58.010][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-31 21:41:58.011][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-31 21:41:58.012][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-31 21:41:58.013][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.016][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-31 21:41:58.017][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-31 21:41:58.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.020][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-31 21:41:58.021][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-31 21:41:58.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.024][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-31 21:41:58.025][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-31 21:41:58.026][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.029][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-31 21:41:58.030][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-31 21:41:58.031][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-31 21:41:58.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.035][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-31 21:41:58.037][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-31 21:41:58.042][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-31 21:41:58.044][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.047][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[2025-10-31 21:41:58.049][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-31 21:41:58.051][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-31 21:41:58.053][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-31 21:41:58.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.060][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-31 21:41:58.063][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:58.066][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-31 21:41:58.068][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.070][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 21:41:58.073][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.075][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 21:41:58.077][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:58.079][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 21:41:58.081][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-31 21:41:58.083][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 21:41:58.085][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.087][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-31 21:41:58.089][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 21:41:58.091][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:58.093][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.095][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 21:41:58.095][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 21:41:58.095][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 21:41:58.095][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-31 21:41:58.095][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-31 21:41:58.097][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 21:41:58.099][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:58.101][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:58.103][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 21:41:58.105][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:58.106][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:58.108][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 21:41:58.110][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:58.112][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 21:41:58.113][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 21:41:58.115][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:58.117][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:58.119][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-31 21:41:58.122][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:58.124][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-31 21:41:58.126][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.128][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 21:41:58.130][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.132][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 21:41:58.133][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:58.135][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 21:41:58.137][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-31 21:41:58.138][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 21:41:58.140][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.142][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-31 21:41:58.143][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 21:41:58.145][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:58.147][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.148][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 21:41:58.148][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 21:41:58.148][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 21:41:58.148][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-31 21:41:58.148][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-31 21:41:58.150][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 21:41:58.151][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:58.153][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:58.154][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 21:41:58.156][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:58.157][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:58.159][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 21:41:58.160][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:58.162][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 21:41:58.163][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 21:41:58.165][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:58.166][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:58.168][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-31 21:41:58.171][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.173][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-31 21:41:58.175][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.178][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 21:41:58.180][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.182][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 21:41:58.183][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:58.184][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 21:41:58.185][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-31 21:41:58.187][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 21:41:58.189][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:58.190][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-31 21:41:58.192][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 21:41:58.194][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:58.196][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.197][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:58.199][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 21:41:58.201][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:58.202][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:58.204][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 21:41:58.205][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:58.206][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:58.208][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 21:41:58.209][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:58.211][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 21:41:58.212][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 21:41:58.214][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:58.215][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:58.217][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-31 21:41:58.220][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.221][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-31 21:41:58.223][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.224][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 21:41:58.226][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.227][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 21:41:58.229][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:58.231][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-31 21:41:58.232][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-31 21:41:58.234][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 21:41:58.236][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:58.237][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-31 21:41:58.239][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 21:41:58.241][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:58.242][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.244][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:58.246][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-31 21:41:58.248][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:58.249][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:58.251][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 21:41:58.253][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:58.254][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:58.256][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 21:41:58.258][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:58.260][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 21:41:58.261][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 21:41:58.263][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:58.265][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-31 21:41:58.268][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 21:41:58.269][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.275][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.278][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.280][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[2025-10-31 21:41:58.281][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.299][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.306][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.318][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.322][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.325][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.330][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.332][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.374][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.375][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.385][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.386][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.393][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.398][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.402][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.405][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-31 21:41:58.410][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-31 21:41:58.413][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-31 21:41:58.416][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-31 21:41:58.418][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-31 21:41:58.421][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-31 21:41:58.424][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-31 21:41:58.426][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-31 21:41:58.429][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-31 21:41:58.432][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-31 21:41:58.435][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-31 21:41:58.438][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-31 21:41:58.441][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-31 21:41:58.444][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-31 21:41:58.447][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-31 21:41:58.450][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-31 21:41:58.453][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-31 21:41:58.456][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-31 21:41:58.458][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-31 21:41:58.461][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-31 21:41:58.464][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-31 21:41:58.466][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-31 21:41:58.469][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-31 21:41:58.471][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-31 21:41:58.473][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-31 21:41:58.476][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-31 21:41:58.478][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-31 21:41:58.481][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-31 21:41:58.483][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-31 21:41:58.485][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-31 21:41:58.488][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-31 21:41:58.490][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-31 21:41:58.493][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-31 21:41:58.495][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-31 21:41:58.498][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-31 21:41:58.501][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-31 21:41:58.504][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-31 21:41:58.506][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-31 21:41:58.509][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-31 21:41:58.511][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-31 21:41:58.514][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-31 21:41:58.517][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-31 21:41:58.519][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-31 21:41:58.522][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-31 21:41:58.524][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-31 21:41:58.527][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-31 21:41:58.530][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-31 21:41:58.533][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-31 21:41:58.535][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-31 21:41:58.539][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-31 21:41:58.542][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-31 21:41:58.544][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-31 21:41:58.547][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-31 21:41:58.566][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-31 21:41:58.570][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-31 21:41:58.572][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-31 21:41:58.574][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-31 21:41:58.576][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-31 21:41:58.577][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-31 21:41:58.579][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-31 21:41:58.581][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-31 21:41:58.582][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-31 21:41:58.584][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-31 21:41:58.585][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-31 21:41:58.587][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-31 21:41:58.588][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-31 21:41:58.590][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-31 21:41:58.591][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-31 21:41:58.593][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-31 21:41:58.595][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-31 21:41:58.596][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-31 21:41:58.598][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-31 21:41:58.599][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-31 21:41:58.601][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-31 21:41:58.602][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-31 21:41:58.604][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-31 21:41:58.605][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-31 21:41:58.607][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-31 21:41:58.608][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-31 21:41:58.610][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-31 21:41:58.611][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-31 21:41:58.613][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-31 21:41:58.614][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-31 21:41:58.616][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-31 21:41:58.618][initialize] This is biodb version 1.18.0.
biodb.DEBUG[2025-10-31 21:41:58.619][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-31 21:41:58.620][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.622][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.623][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:58.626][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:58.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.630][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[2025-10-31 21:41:58.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:58.633][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:58.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.636][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[2025-10-31 21:41:58.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:58.639][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:58.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.643][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:58.646][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:58.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.650][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[2025-10-31 21:41:58.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.651][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:58.652][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:58.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.656][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[2025-10-31 21:41:58.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:58.659][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:58.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.661][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:58.666][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:58.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:58.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:58.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.678][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:58.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:58.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:58.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:58.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.690][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:58.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:58.693][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.697][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:58.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:58.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:58.705][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:58.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:58.712][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:58.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:58.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:58.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.739][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-31 21:41:58.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:58.740][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:58.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-31 21:41:58.746][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-31 21:41:58.747][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-31 21:41:58.749][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:58.750][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-31 21:41:58.751][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.752][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-31 21:41:58.753][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.754][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-31 21:41:58.755][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.756][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-31 21:41:58.758][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-31 21:41:58.759][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-31 21:41:58.760][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.761][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-31 21:41:58.762][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-31 21:41:58.763][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-31 21:41:58.763][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-31 21:41:58.763][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-31 21:41:58.763][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-31 21:41:58.763][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-31 21:41:58.763][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-31 21:41:58.763][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-31 21:41:58.763][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-31 21:41:58.763][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-31 21:41:58.763][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-31 21:41:58.763][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-31 21:41:58.764][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-31 21:41:58.765][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-31 21:41:58.765][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-31 21:41:58.765][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-31 21:41:58.766][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-31 21:41:58.767][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:58.768][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:58.769][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-31 21:41:58.770][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-31 21:41:58.771][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-31 21:41:58.772][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-31 21:41:58.773][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-31 21:41:58.773][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-31 21:41:58.774][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-31 21:41:58.775][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-31 21:41:58.776][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-31 21:41:58.777][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-31 21:41:58.777][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-31 21:41:58.778][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-31 21:41:58.780][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-31 21:41:58.782][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-31 21:41:58.783][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-31 21:41:58.785][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-31 21:41:58.786][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-31 21:41:58.790][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-31 21:41:58.793][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-31 21:41:58.794][biodb::testThat]
biodb.INFO [2025-10-31 21:41:58.795][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-10-31 21:41:58.796][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-31 21:41:58.797][biodb::testThat]
sched.DEBUG[2025-10-31 21:41:58.800][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-31 21:41:58.802][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:58.808][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-31 21:41:58.809][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-31 21:41:58.813][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 [2025-10-31 21:41:58.815][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-31 21:41:58.817][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-31 21:41:58.818][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-31 21:41:58.823][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-10-31 21:41:58.825][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-31 21:41:58.827][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-31 21:41:58.835][FUN] Found encoding UTF-8 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-10-31 21:41:58.838][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-31 21:41:58.839][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-31 21:41:58.840][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-31 21:41:58.842][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-31 21:41:58.843][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:58.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:58.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.851][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-31 21:41:58.855][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:58.857][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:58.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.859][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:58.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:58.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.864][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:58.865][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:58.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.867][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.869][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-31 21:41:58.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-31 21:41:58.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.873][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:58.874][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:58.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.876][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.878][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-31 21:41:58.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-31 21:41:58.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.882][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-31 21:41:58.883][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-31 21:41:58.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.885][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.886][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-31 21:41:58.888][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-31 21:41:58.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.890][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.891][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:58.892][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:58.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.894][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.896][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:58.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-31 21:41:58.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.900][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:58.901][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:58.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.903][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.905][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-31 21:41:58.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-31 21:41:58.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.909][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:58.910][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:58.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.912][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:58.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-31 21:41:58.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.918][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:58.919][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:58.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.920][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.922][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-31 21:41:58.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-31 21:41:58.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.927][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:58.928][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:58.929][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.930][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.931][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-31 21:41:58.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-31 21:41:58.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.935][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:58.936][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:58.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.938][ef$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.939][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-31 21:41:58.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-31 21:41:58.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.943][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:58.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:58.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.947][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:58.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:58.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:58.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:58.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-31 21:41:58.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-31 21:41:58.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.958][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:58.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:58.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.962][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:58.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:58.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:58.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:58.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:58.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:58.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.973][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:58.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:58.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-31 21:41:58.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-31 21:41:58.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-31 21:41:58.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-31 21:41:58.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-31 21:41:58.981][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-10-31 21:41:58.984][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-31 21:41:58.985][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-31 21:41:58.986][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-31 21:41:58.987][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-31 21:41:58.988][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-31 21:41:58.989][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-31 21:41:58.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-31 21:41:58.990][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-31 21:41:58.991][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
 28.697   0.983  38.207

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.5410.0410.586
ChebiEntry0.1370.0030.140