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This page was generated on 2025-10-24 12:03 -0400 (Fri, 24 Oct 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4898
lconwaymacOS 12.7.6 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4688
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4634
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4658
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 210/2359HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-10-23 14:17 -0400 (Thu, 23 Oct 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: b5e26aa
git_last_commit_date: 2025-06-24 10:11:00 -0400 (Tue, 24 Jun 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.6 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

CHECK results for biodbChebi on nebbiolo2

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

raw results


Summary

Package: biodbChebi
Version: 1.15.1
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings biodbChebi_1.15.1.tar.gz
StartedAt: 2025-10-23 21:32:32 -0400 (Thu, 23 Oct 2025)
EndedAt: 2025-10-23 21:34:02 -0400 (Thu, 23 Oct 2025)
EllapsedTime: 90.1 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

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


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

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

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


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

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


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

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-10-23 21:33:21.785][biodb::testContext]
biodb.INFO [2025-10-23 21:33:21.815][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 21:33:21.839][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-10-23 21:33:21.857][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 21:33:21.876][biodb::testContext]
biodb.INFO [2025-10-23 21:33:21.923][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-23 21:33:21.951][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-23 21:33:21.982][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 21:33:21.989][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-23 21:33:21.995][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-23 21:33:21.999][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:22.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:22.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:22.014][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-23 21:33:22.112][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-23 21:33:22.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:22.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:22.131][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:22.138][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-23 21:33:22.143][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-23 21:33:22.238][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:22.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:22.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:22.257][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-23 21:33:22.263][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-23 21:33:22.270][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-23 21:33:22.276][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:22.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:22.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:22.292][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-23 21:33:22.298][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-23 21:33:22.303][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-23 21:33:22.308][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:22.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:22.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:22.322][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-23 21:33:22.330][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-23 21:33:22.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:22.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:22.350][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:22.355][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-23 21:33:22.359][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-23 21:33:22.364][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-23 21:33:22.367][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:22.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:22.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:22.378][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-23 21:33:22.384][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-23 21:33:22.389][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:22.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:22.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:22.401][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-23 21:33:22.405][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-23 21:33:22.408][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-23 21:33:22.413][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:22.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:22.419][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:22.423][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-23 21:33:22.427][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-23 21:33:22.432][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-23 21:33:22.437][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-23 21:33:22.442][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-23 21:33:22.447][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-23 21:33:22.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:22.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:22.460][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[2025-10-23 21:33:22.466][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-23 21:33:22.473][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-23 21:33:22.479][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:22.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:22.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:22.492][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-23 21:33:22.496][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-23 21:33:22.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:22.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:22.508][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.DEBUG[2025-10-23 21:33:22.513][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-23 21:33:22.518][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-23 21:33:22.522][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:22.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:22.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:22.536][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-23 21:33:22.541][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-23 21:33:22.547][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-23 21:33:22.551][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:22.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:22.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:22.564][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-23 21:33:22.569][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-23 21:33:22.597][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-23 21:33:22.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:22.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:22.635][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:22.640][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-23 21:33:22.646][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-23 21:33:22.652][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-23 21:33:22.657][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:22.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:22.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:22.682][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-23 21:33:22.923][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:23.043][self$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[2025-10-23 21:33:23.054][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:23.067][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 21:33:23.088][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:23.102][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 21:33:23.117][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:23.131][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 21:33:23.138][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 21:33:23.144][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 21:33:23.149][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:23.154][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-23 21:33:23.159][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 21:33:23.164][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:23.170][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:23.176][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 21:33:23.176][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 21:33:23.176][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 21:33:23.176][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 21:33:23.176][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 21:33:23.182][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 21:33:23.187][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:23.192][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:23.197][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 21:33:23.202][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:23.206][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:23.210][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 21:33:23.218][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:23.231][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 21:33:23.242][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 21:33:23.252][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:23.268][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:23.284][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-23 21:33:23.310][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:23.325][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 21:33:23.339][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:23.353][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 21:33:23.370][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:23.381][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 21:33:23.394][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:23.408][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 21:33:23.417][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 21:33:23.432][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 21:33:23.446][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:23.460][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-23 21:33:23.470][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 21:33:23.486][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:23.499][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:23.513][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 21:33:23.513][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 21:33:23.513][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 21:33:23.513][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 21:33:23.513][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 21:33:23.522][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 21:33:23.529][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:23.536][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:23.550][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 21:33:23.563][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:23.567][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:23.589][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 21:33:23.595][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:23.599][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 21:33:23.602][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 21:33:23.606][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:23.610][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:23.614][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-23 21:33:23.621][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:23.624][self$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[2025-10-23 21:33:23.626][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:23.629][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 21:33:23.632][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:23.635][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 21:33:23.642][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:23.646][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 21:33:23.657][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 21:33:23.665][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 21:33:23.676][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:23.684][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-23 21:33:23.692][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 21:33:23.700][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:23.715][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:23.725][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:23.732][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 21:33:23.740][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:23.751][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:23.764][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 21:33:23.773][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:23.787][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:23.799][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 21:33:23.813][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:23.823][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 21:33:23.832][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 21:33:23.846][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:23.854][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:23.865][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-23 21:33:23.873][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:23.989][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 21:33:23.999][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:24.010][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 21:33:24.015][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:24.019][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 21:33:24.022][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:24.025][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 21:33:24.029][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 21:33:24.033][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 21:33:24.037][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:24.041][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-23 21:33:24.046][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 21:33:24.050][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:24.055][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:24.059][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:24.062][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 21:33:24.066][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:24.069][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:24.073][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 21:33:24.078][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:24.083][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:24.088][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 21:33:24.093][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:24.105][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 21:33:24.109][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 21:33:24.117][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:24.125][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:24.156][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 21:33:24.169][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:24.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:24.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:24.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:24.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:24.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:24.249][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:24.264][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:24.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:24.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:24.285][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:24.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:24.296][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:24.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:24.307][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:24.312][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:24.316][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:24.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:24.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:24.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:24.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:24.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:24.338][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:24.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:24.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:24.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:24.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:24.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:24.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:24.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:24.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:24.418][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[2025-10-23 21:33:24.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:24.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:24.456][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:24.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:24.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:24.500][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:24.508][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:24.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:24.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:24.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:24.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:24.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:24.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:24.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:24.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:24.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:24.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:24.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:24.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:24.575][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[2025-10-23 21:33:24.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:24.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:24.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:24.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:24.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:24.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:24.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:24.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:24.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:24.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:24.684][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:24.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:24.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:24.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:24.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:24.758][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:24.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:24.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:24.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:24.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:24.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:24.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:24.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:24.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:24.804][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[2025-10-23 21:33:24.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:24.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:24.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:24.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:24.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:24.825][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-23 21:33:24.842][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-23 21:33:24.855][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-23 21:33:24.876][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-23 21:33:24.892][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 21:33:24.907][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-23 21:33:24.929][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-23 21:33:24.947][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-23 21:33:24.973][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-23 21:33:24.993][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-23 21:33:25.014][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 21:33:25.022][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-23 21:33:25.030][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-23 21:33:25.038][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-23 21:33:25.045][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-23 21:33:25.052][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-23 21:33:25.060][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-23 21:33:25.068][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-23 21:33:25.074][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 21:33:25.080][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-23 21:33:25.085][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-23 21:33:25.090][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-23 21:33:25.100][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-23 21:33:25.110][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-23 21:33:25.124][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-23 21:33:25.138][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-23 21:33:25.153][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-23 21:33:25.164][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-23 21:33:25.178][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-23 21:33:25.193][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-23 21:33:25.208][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-23 21:33:25.227][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-23 21:33:25.251][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-23 21:33:25.267][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-23 21:33:25.274][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-23 21:33:25.280][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-23 21:33:25.286][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-23 21:33:25.292][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-23 21:33:25.298][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-23 21:33:25.303][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-23 21:33:25.309][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-23 21:33:25.314][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-23 21:33:25.319][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-23 21:33:25.324][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-23 21:33:25.329][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-23 21:33:25.334][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-23 21:33:25.339][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-23 21:33:25.344][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-23 21:33:25.353][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-23 21:33:25.362][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-23 21:33:25.373][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-23 21:33:25.388][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-23 21:33:25.404][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-23 21:33:25.418][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-23 21:33:25.433][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-23 21:33:25.444][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-23 21:33:25.459][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-23 21:33:25.475][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-23 21:33:25.489][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-23 21:33:25.506][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-23 21:33:25.518][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-23 21:33:25.524][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-23 21:33:25.531][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-23 21:33:25.537][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-23 21:33:25.543][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-23 21:33:25.548][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-23 21:33:25.554][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 21:33:25.558][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 21:33:25.563][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-23 21:33:25.567][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-23 21:33:25.573][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-23 21:33:25.578][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-23 21:33:25.583][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-23 21:33:25.587][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-23 21:33:25.590][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-23 21:33:25.594][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-23 21:33:25.600][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-23 21:33:25.609][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-23 21:33:25.688][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-23 21:33:25.704][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-23 21:33:25.721][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-23 21:33:25.736][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-23 21:33:25.746][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-23 21:33:25.781][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-23 21:33:25.789][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-23 21:33:25.803][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 21:33:25.808][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:25.813][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:25.818][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:25.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:25.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:25.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:25.851][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:25.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:25.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:25.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:25.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:25.883][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:25.888][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:25.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:25.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:25.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:25.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:25.919][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:25.926][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:25.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:25.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:25.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:25.944][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:25.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:25.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:25.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:25.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:25.978][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:25.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:25.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:26.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:26.012][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:26.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:26.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:26.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:26.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:26.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:26.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:26.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:26.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:26.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:26.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:26.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:26.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:26.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:26.129][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[2025-10-23 21:33:26.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:26.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:26.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:26.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:26.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:26.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:26.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:26.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:26.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:26.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:26.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:26.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:26.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:26.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:26.272][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:26.281][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:26.292][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:26.302][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:26.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:26.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:26.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:26.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:26.346][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:26.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:26.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:26.371][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:26.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:26.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:26.399][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:26.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:26.406][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:26.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:26.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:26.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:26.418][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[2025-10-23 21:33:26.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:26.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:26.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:26.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:26.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:26.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:26.439][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[2025-10-23 21:33:26.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:26.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:26.448][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:26.451][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:26.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:26.457][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:26.460][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[2025-10-23 21:33:26.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:26.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:26.468][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:26.471][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:26.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:26.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:26.479][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:26.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:26.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:26.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:26.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:26.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:26.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:26.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:26.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:26.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:26.553][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:26.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:26.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:26.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:26.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:26.602][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-23 21:33:26.662][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-23 21:33:26.670][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:26.675][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-23 21:33:26.679][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:26.684][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 21:33:26.687][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:26.690][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 21:33:26.694][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:26.697][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-23 21:33:26.700][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-23 21:33:26.702][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 21:33:26.705][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:26.708][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-23 21:33:26.712][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 21:33:26.716][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-23 21:33:26.716][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-23 21:33:26.716][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-23 21:33:26.716][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-23 21:33:26.716][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-23 21:33:26.716][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-23 21:33:26.716][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-23 21:33:26.716][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-23 21:33:26.716][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-23 21:33:26.716][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-23 21:33:26.716][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-23 21:33:26.719][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:26.722][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 21:33:26.722][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 21:33:26.722][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 21:33:26.726][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-23 21:33:26.733][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:26.736][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:26.744][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 21:33:26.755][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:26.763][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:26.772][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 21:33:26.780][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-23 21:33:26.780][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-23 21:33:26.788][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 21:33:26.796][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 21:33:26.804][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:26.811][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-23 21:33:26.811][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-23 21:33:26.866][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 21:33:26.880][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 21:33:26.901][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-23 21:33:26.907][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 21:33:26.912][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 21:33:26.918][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 21:33:27.043][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-23 21:33:27.141][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-23 21:33:27.306][biodb::testThat]
biodb.INFO [2025-10-23 21:33:27.322][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-10-23 21:33:27.335][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:27.348][biodb::testThat]
biodb.TRACE[2025-10-23 21:33:27.371][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-10-23 21:33:27.392][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:27.423][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:27.481][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:27.493][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:27.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:27.619][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:27.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:27.647][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:27.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:27.732][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:27.738][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:27.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:27.748][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:27.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:27.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:27.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:27.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:27.867][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:27.876][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:27.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:27.895][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.059][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:28.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:28.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.117][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:28.125][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:28.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.144][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.161][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:28.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:28.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.198][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:28.213][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:28.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.230][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.243][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:28.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:28.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.280][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:28.293][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:28.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.304][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.322][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:28.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:28.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.357][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:28.366][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:28.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.387][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.393][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:28.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:28.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.435][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:28.444][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:28.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.465][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.480][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:28.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:28.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.525][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:28.530][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:28.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.552][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:28.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:28.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.603][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:28.611][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:28.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.629][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.640][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:28.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:28.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.666][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:28.670][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:28.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.676][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.680][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:28.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:28.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.694][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:28.698][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:28.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.705][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.711][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:28.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:28.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:28.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:28.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.744][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:28.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:28.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:28.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:28.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:28.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:28.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:28.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:28.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:28.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:28.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:29.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:29.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:29.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:29.107][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:29.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:29.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:29.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:29.421][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:29.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:29.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:29.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:29.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:29.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:29.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:29.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:29.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:29.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:29.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:29.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:29.541][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-10-23 21:33:29.564][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:29.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:29.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:29.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:29.602][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:29.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:29.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:29.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:29.741][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:29.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:29.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:29.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:29.798][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:29.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:29.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:29.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:29.846][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:29.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:29.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:29.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:29.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:29.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:29.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:29.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:29.879][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-23 21:33:29.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-23 21:33:29.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:29.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:29.891][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-23 21:33:29.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-23 21:33:29.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:29.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:29.903][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-23 21:33:29.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-23 21:33:29.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:29.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:29.917][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-23 21:33:29.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-23 21:33:29.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:29.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:29.952][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:29.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:29.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:29.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:30.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:30.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.160][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:30.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:30.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:30.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:30.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.229][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:30.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:30.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:30.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:30.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.265][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:30.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:30.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:30.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:30.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:30.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:30.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:30.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:30.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.435][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:30.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:30.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:30.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:30.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:30.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:30.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:30.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:30.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.615][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:30.628][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:30.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.640][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:30.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:30.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:30.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:30.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:30.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:30.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:30.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:30.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.827][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:30.831][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:30.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.838][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:30.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:30.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.891][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:30.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:30.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.912][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:30.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:30.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.930][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:30.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:30.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.946][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:30.950][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:30.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.958][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:30.961][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:30.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:30.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:30.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:31.004][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:31.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:31.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:31.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:31.023][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:31.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:31.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:31.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:31.042][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:31.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:31.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:31.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:31.057][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:31.061][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:31.064][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:31.067][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:31.069][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:31.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:31.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:31.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:31.109][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:31.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:31.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:31.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:31.126][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:31.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:31.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:31.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:31.138][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:31.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:31.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:31.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:31.149][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:31.152][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:31.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:31.162][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:31.170][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:31.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:31.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:31.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:31.253][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:31.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:31.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:31.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:31.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:31.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:31.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:31.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:31.301][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:31.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:31.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:31.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:31.315][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:31.319][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:31.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:31.324][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:31.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:31.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:31.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:31.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:31.788][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:31.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:31.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:31.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:31.829][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:31.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:31.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:31.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:31.885][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:31.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:31.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:31.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:31.925][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:31.933][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:31.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:31.955][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:31.963][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:31.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:31.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:31.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.077][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-23 21:33:32.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:32.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.128][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-23 21:33:32.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:32.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.174][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-23 21:33:32.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:32.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.213][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-23 21:33:32.225][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:32.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.250][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.264][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-23 21:33:32.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:32.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.372][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:32.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:32.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.405][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:32.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:32.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.423][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:32.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:32.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.441][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:32.446][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:32.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.453][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.457][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:32.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:32.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.505][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:32.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:32.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.530][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:32.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:32.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.552][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:32.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:32.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.571][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:32.576][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:32.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.584][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.589][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:32.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:32.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.644][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:32.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:32.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.667][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:32.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:32.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.684][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:32.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:32.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.700][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:32.704][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:32.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.712][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.716][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:32.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:32.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.757][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:32.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:32.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.776][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:32.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:32.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.793][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:32.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:32.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.808][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:32.812][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:32.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.818][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.822][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:32.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:32.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.863][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:32.868][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:32.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.876][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.892][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:32.896][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:32.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.903][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.936][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:32.940][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:32.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.945][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.958][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:32.961][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:32.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:32.967][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:32.988][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:32.995][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:33.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.006][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.017][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:33.020][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:33.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.025][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.037][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:33.040][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:33.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.046][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.059][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:33.063][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:33.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.068][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.082][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-10-23 21:33:33.086][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:33.089][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.091][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.103][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:33.106][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:33.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.111][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.124][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:33.128][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:33.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.134][ef$get] fields variable is a list.
biodb.INFO [2025-10-23 21:33:33.156][biodb::testThat]
biodb.INFO [2025-10-23 21:33:33.159][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-10-23 21:33:33.162][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:33.165][biodb::testThat]
biodb.DEBUG[2025-10-23 21:33:33.198][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-10-23 21:33:33.205][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:33.217][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:33.235][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-10-23 21:33:33.241][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:33.326][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:33.331][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:33.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:33.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:33.346][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:33.365][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:33.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:33.373][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:33.377][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:33.386][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:33.390][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:33.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.395][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:33.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:33.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.444][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:33.448][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:33.450][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.452][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.456][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:33.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:33.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.466][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:33.486][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:33.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.491][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.495][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:33.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:33.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.507][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:33.510][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:33.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.515][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.518][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:33.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:33.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.527][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:33.530][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:33.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.534][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.537][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:33.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:33.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.545][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:33.547][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:33.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.550][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.553][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:33.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:33.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.561][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:33.564][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:33.565][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.567][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.570][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:33.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:33.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.579][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:33.585][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:33.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.590][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:33.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:33.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.604][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:33.606][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:33.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.610][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.614][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:33.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:33.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.624][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:33.626][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:33.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.631][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.634][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:33.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:33.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.642][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:33.644][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:33.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.647][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.650][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:33.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:33.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:33.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:33.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.666][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:33.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:33.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:33.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:33.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.681][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:33.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:33.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.689][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:33.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:33.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.696][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:33.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:33.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:33.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:33.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.711][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:33.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:33.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:33.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:33.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:33.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:33.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:33.733][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-10-23 21:33:33.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-10-23 21:33:33.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-10-23 21:33:33.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-10-23 21:33:33.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-10-23 21:33:33.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-10-23 21:33:33.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-10-23 21:33:33.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-23 21:33:33.777][biodb::testThat]
biodb.INFO [2025-10-23 21:33:33.780][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-10-23 21:33:33.782][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:33.784][biodb::testThat]
biodb.TRACE[2025-10-23 21:33:33.791][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:33.794][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:33.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.798][ef$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:33.801][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-10-23 21:33:33.868][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:33.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:33.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.880][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:33.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:33.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:33.891][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:33.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:33.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:33.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:33.929][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-10-23 21:33:33.945][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-23 21:33:34.022][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:34.049][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-23 21:33:34.062][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 21:33:34.172][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 [2025-10-23 21:33:34.311][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:34.326][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 21:33:34.328][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:34.340][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-10-23 21:33:34.395][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:34.402][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:34.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:34.417][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:34.425][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:34.433][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:34.441][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:34.453][ef$get] fields variable is a list.
biodb.INFO [2025-10-23 21:33:34.477][biodb::testThat]
biodb.INFO [2025-10-23 21:33:34.484][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-10-23 21:33:34.487][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:34.490][biodb::testThat]
biodb.TRACE[2025-10-23 21:33:34.587][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:34.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:34.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:34.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:34.622][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:34.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:34.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:34.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:34.649][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:34.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:34.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:34.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 21:33:34.991][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 [2025-10-23 21:33:35.000][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:35.010][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 21:33:35.015][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-23 21:33:35.062][biodb::testThat]
biodb.INFO [2025-10-23 21:33:35.065][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-10-23 21:33:35.068][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:35.071][biodb::testThat]
biodb.TRACE[2025-10-23 21:33:35.138][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:35.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:35.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:35.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:35.154][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:35.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:35.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:35.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:35.167][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:35.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:35.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:35.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:35.179][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:35.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:35.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:35.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:35.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:35.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:35.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:35.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:35.200][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:35.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:35.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:35.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:35.208][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-23 21:33:35.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-23 21:33:35.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:35.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:35.217][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-23 21:33:35.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-23 21:33:35.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:35.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:35.225][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-23 21:33:35.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-23 21:33:35.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:35.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:35.233][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-23 21:33:35.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-23 21:33:35.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:35.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:35.299][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:35.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:35.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:35.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:35.314][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:35.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:35.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:35.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:35.327][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:35.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:35.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:35.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:35.338][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:35.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:35.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:35.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:35.363][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:35.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:35.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:35.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:35.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:35.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:35.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:35.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:35.442][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-23 21:33:35.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-23 21:33:35.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:35.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:35.452][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-10-23 21:33:35.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-10-23 21:33:35.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:35.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:35.462][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-10-23 21:33:35.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-10-23 21:33:35.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:35.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:35.474][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-10-23 21:33:35.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-10-23 21:33:35.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:35.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-23 21:33:35.510][biodb::testThat]
biodb.INFO [2025-10-23 21:33:35.514][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-10-23 21:33:35.518][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:35.522][biodb::testThat]
biodb.INFO [2025-10-23 21:33:35.554][biodb::testThat]
biodb.INFO [2025-10-23 21:33:35.559][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-10-23 21:33:35.563][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:35.567][biodb::testThat]
biodb.INFO [2025-10-23 21:33:35.592][biodb::testThat]
biodb.INFO [2025-10-23 21:33:35.596][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-10-23 21:33:35.599][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:35.603][biodb::testThat]
biodb.DEBUG[2025-10-23 21:33:35.616][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-10-23 21:33:36.410][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-10-23 21:33:36.934][biodb::testThat]
biodb.INFO [2025-10-23 21:33:36.939][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-10-23 21:33:36.943][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:36.947][biodb::testThat]
biodb.TRACE[2025-10-23 21:33:36.971][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:36.976][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:36.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:36.985][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:36.989][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:36.994][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:36.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:37.001][ef$get] fields variable is a list.
biodb.INFO [2025-10-23 21:33:37.008][biodb::testThat]
biodb.INFO [2025-10-23 21:33:37.011][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-10-23 21:33:37.014][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:37.016][biodb::testThat]
biodb.TRACE[2025-10-23 21:33:37.078][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:37.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:37.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:37.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:37.093][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:37.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:37.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:37.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:37.104][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:37.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:37.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:37.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 21:33:37.481][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 [2025-10-23 21:33:37.492][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:37.503][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 21:33:37.508][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 21:33:37.792][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 [2025-10-23 21:33:37.801][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:37.810][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 21:33:37.814][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-23 21:33:37.861][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-23 21:33:37.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-23 21:33:37.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:37.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:37.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:37.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:37.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:37.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:37.929][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:37.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:37.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:37.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:37.944][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:37.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:37.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:37.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:37.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:37.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:37.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:37.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:37.969][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:37.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:37.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:37.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 21:33:37.998][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 [2025-10-23 21:33:38.008][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:38.015][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-23 21:33:38.018][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:38.028][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:38.031][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:38.035][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:38.050][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:38.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:38.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:38.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:38.065][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-10-23 21:33:38.202][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:38.209][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:38.217][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-10-23 21:33:38.221][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:38.226][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:38.229][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:38.235][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:38.237][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:38.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:38.251][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:38.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:38.256][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:38.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:38.265][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:38.267][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:38.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.272][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:38.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:38.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.284][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:38.286][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:38.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.290][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.294][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:38.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:38.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.302][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:38.305][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:38.306][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.308][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.312][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:38.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:38.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.320][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:38.323][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:38.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.327][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.330][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:38.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:38.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.340][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:38.342][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:38.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.346][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.349][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:38.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:38.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.357][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:38.381][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:38.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.388][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.392][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:38.395][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:38.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.400][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.403][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:38.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:38.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.413][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:38.416][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:38.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.420][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.423][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:38.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:38.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.431][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:38.434][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:38.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.438][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.442][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:38.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:38.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.453][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:38.455][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:38.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.460][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.462][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:38.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:38.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.471][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:38.473][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:38.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.478][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.481][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:38.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:38.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:38.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:38.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.497][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:38.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:38.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.506][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:38.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:38.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.514][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:38.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:38.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:38.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:38.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:38.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:38.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:38.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:38.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:38.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:38.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:38.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:38.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.567][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:38.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:38.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:38.575][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-10-23 21:33:38.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:38.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:38.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:38.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:38.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.620][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:38.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:38.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 21:33:38.631][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 21:33:38.637][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:38.642][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-23 21:33:38.644][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:38.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:38.682][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:38.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:38.697][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:38.700][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:38.702][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:38.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:38.707][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:38.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:38.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:38.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:38.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:38.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:38.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:38.731][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:38.732][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:38.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:38.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:38.771][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:38.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:38.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:38.782][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-10-23 21:33:38.785][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:38.789][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:38.797][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-10-23 21:33:38.800][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:38.804][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:38.807][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:38.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:38.814][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:38.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:38.832][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:38.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:38.838][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:38.840][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:38.847][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:38.850][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:38.853][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.856][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:38.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:38.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.870][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:38.873][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:38.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.877][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.881][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:38.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:38.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.890][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:38.893][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:38.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.898][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.902][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:38.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:38.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.911][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:38.913][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:38.915][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.917][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.920][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:38.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:38.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.929][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:38.932][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:38.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.936][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.939][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:38.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:38.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.947][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:38.950][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:38.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.953][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.956][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:38.958][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:38.960][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.962][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.965][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:38.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:38.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.973][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:38.975][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:38.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.978][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:38.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:38.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.989][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:38.991][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:38.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:38.994][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:38.997][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:38.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:39.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.004][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:39.006][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:39.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.009][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.011][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:39.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:39.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.019][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:39.020][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:39.022][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.024][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.026][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:39.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:39.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.034][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.041][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.048][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.057][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.062][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:39.106][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-10-23 21:33:39.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 21:33:39.168][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 [2025-10-23 21:33:39.172][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:39.177][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 21:33:39.178][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:39.183][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:39.184][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:39.186][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:39.193][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:39.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:39.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:39.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:39.200][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.211][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:39.218][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:39.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:39.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:39.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:39.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:39.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:39.232][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:39.234][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-10-23 21:33:39.236][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:39.238][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:39.242][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-10-23 21:33:39.244][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:39.246][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:39.247][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:39.250][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:39.251][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:39.252][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:39.260][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:39.261][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:39.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:39.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:39.269][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.270][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.273][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.280][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:39.282][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:39.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.284][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.286][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:39.287][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:39.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.289][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.291][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:39.293][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:39.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.295][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.297][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:39.298][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:39.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.300][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.302][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:39.303][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:39.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.306][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.308][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:39.309][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.312][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.313][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:39.315][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:39.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.317][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.320][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:39.321][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:39.322][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.324][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.326][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:39.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:39.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.332][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:39.334][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:39.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.336][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.338][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:39.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:39.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.344][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:39.346][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:39.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.348][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.412][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:39.430][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-10-23 21:33:39.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.454][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:39.460][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:39.461][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:39.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:39.470][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:39.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:39.473][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:39.475][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:39.477][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-10-23 21:33:39.478][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:39.481][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:39.486][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-10-23 21:33:39.487][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:39.489][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:39.491][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:39.494][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:39.495][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:39.496][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:39.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:39.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:39.508][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:39.509][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:39.513][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.515][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.517][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.519][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.524][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:39.526][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:39.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.528][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.530][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:39.531][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:39.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.534][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.536][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:39.537][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:39.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.540][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.542][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:39.543][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:39.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.546][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.548][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:39.549][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:39.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.552][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.554][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:39.555][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.557][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.559][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:39.561][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:39.562][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.563][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.565][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:39.567][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:39.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.570][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.573][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:39.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:39.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.579][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:39.581][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:39.582][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.584][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.586][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:39.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:39.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.591][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:39.593][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:39.594][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.595][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.608][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:39.673][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-10-23 21:33:39.675][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:39.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:39.703][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:39.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:39.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:39.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:39.715][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:39.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:39.718][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-10-23 21:33:39.720][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:39.722][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:39.727][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-10-23 21:33:39.729][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:39.731][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:39.733][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:39.736][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:39.737][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:39.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:39.748][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:39.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:39.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:39.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:39.757][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.758][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.761][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.769][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:39.770][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:39.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.773][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.775][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:39.776][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:39.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.779][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.782][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:39.784][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:39.786][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.788][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.790][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:39.792][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:39.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.796][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.798][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:39.800][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:39.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.804][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.806][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:39.808][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.811][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.813][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:39.815][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:39.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.817][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.820][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:39.821][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:39.822][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.824][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.827][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:39.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:39.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.836][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:39.839][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:39.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.843][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.845][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:39.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:39.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.854][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:39.856][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:39.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.860][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.863][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.865][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.872][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.880][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:39.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.895][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.910][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.919][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.936][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:39.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:39.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:39.973][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-10-23 21:33:39.976][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.984][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:39.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:39.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:39.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.000][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:40.015][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:40.017][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:40.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:40.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:40.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:40.036][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:40.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:40.040][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-10-23 21:33:40.042][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:40.045][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:40.052][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-10-23 21:33:40.055][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:40.057][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:40.059][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:40.062][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:40.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:40.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:40.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:40.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:40.077][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:40.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:40.082][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:40.084][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:40.085][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.086][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:40.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:40.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.094][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:40.096][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:40.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.098][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.101][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:40.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:40.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.106][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:40.108][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:40.109][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.111][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.113][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:40.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:40.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.119][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:40.120][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:40.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.123][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.125][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:40.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:40.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.130][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:40.132][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:40.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.134][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.137][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:40.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:40.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.144][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:40.145][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:40.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.148][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.150][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:40.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:40.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.155][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:40.157][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.160][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.162][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:40.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.168][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:40.169][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:40.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.172][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:40.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:40.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.179][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:40.181][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:40.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.183][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.186][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:40.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:40.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.192][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:40.193][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:40.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.196][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.198][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:40.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:40.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.203][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:40.205][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:40.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.208][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.210][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:40.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:40.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:40.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:40.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:40.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:40.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:40.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:40.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:40.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:40.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:40.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:40.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:40.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:40.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.270][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:40.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:40.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:40.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:40.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:40.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:40.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.288][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:40.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:40.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:40.294][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-10-23 21:33:40.295][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.301][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.308][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:40.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:40.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:40.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:40.327][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:40.329][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:40.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:40.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:40.334][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-10-23 21:33:40.336][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:40.339][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:40.346][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-10-23 21:33:40.349][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:40.352][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:40.354][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:40.358][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:40.359][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:40.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:40.371][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:40.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:40.376][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:40.378][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.TRACE[2025-10-23 21:33:40.383][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:40.385][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:40.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.389][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:40.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:40.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.398][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:40.400][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:40.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.403][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.406][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:40.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:40.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.413][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:40.415][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:40.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.418][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.421][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:40.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:40.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.429][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:40.430][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:40.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.434][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.436][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:40.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:40.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.443][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:40.444][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:40.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.447][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.449][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:40.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:40.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.456][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:40.457][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:40.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.460][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.462][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:40.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:40.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.468][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:40.469][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.472][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.474][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:40.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.480][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:40.482][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:40.483][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.485][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.487][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:40.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:40.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.494][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:40.496][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:40.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.499][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.502][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:40.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:40.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.509][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:40.511][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:40.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.515][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.518][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:40.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:40.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.526][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:40.528][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:40.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.531][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.534][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:40.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:40.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:40.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:40.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:40.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:40.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:40.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:40.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:40.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:40.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.591][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:40.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:40.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:40.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:40.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.605][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:40.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:40.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:40.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:40.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:40.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:40.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:40.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:40.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:40.634][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-10-23 21:33:40.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.650][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:40.657][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:40.658][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:40.659][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:40.674][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:40.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:40.681][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:40.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:40.688][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-10-23 21:33:40.691][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:40.696][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:40.705][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-10-23 21:33:40.709][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:40.714][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:40.718][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:40.724][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:40.727][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:40.729][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:40.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:40.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:40.751][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:40.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:40.762][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:40.767][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:40.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.773][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:40.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:40.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.791][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:40.794][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:40.797][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.800][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.804][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:40.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:40.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.815][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:40.818][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:40.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.822][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.826][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:40.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:40.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.838][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:40.841][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:40.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.848][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.852][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:40.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:40.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.865][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:40.869][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:40.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.875][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.879][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:40.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:40.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.892][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:40.895][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:40.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.900][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.904][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:40.907][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.913][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.918][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:40.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:40.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.931][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:40.935][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:40.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.940][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.944][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:40.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:40.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.957][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:40.960][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:40.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.965][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.969][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:40.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:40.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:40.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:40.980][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:41.013][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:41.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.023][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.028][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:41.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:41.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.043][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:41.047][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:41.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.054][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.058][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:41.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:41.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:41.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:41.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:41.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:41.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.098][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:41.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:41.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:41.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:41.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:41.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:41.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:41.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:41.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:41.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:41.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:41.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:41.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:41.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:41.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.210][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:41.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:41.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:41.233][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-10-23 21:33:41.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:41.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:41.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:41.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:41.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:41.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:41.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:41.308][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:41.312][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:41.317][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:41.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:41.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:41.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:41.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:41.357][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-10-23 21:33:41.361][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:41.367][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:41.377][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-10-23 21:33:41.381][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:41.386][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:41.389][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:41.395][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:41.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:41.401][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:41.420][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:41.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:41.429][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:41.432][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.TRACE[2025-10-23 21:33:41.441][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:41.445][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:41.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.452][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:41.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:41.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.468][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:41.470][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:41.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.475][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.479][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:41.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:41.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.490][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:41.493][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:41.495][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.497][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.500][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:41.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:41.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.509][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:41.512][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:41.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.515][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.518][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:41.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:41.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.527][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:41.530][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:41.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.535][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.539][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:41.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:41.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.552][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:41.554][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:41.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.559][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.563][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:41.566][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:41.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.571][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.575][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:41.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:41.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.585][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:41.587][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:41.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.592][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:41.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:41.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.637][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:41.641][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:41.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.645][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.649][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:41.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:41.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.659][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:41.662][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:41.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.666][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.669][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:41.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:41.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.679][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:41.681][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:41.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.685][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.688][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:41.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:41.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:41.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:41.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:41.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:41.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.705][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:41.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:41.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.711][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:41.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:41.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:41.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:41.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.722][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:41.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:41.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:41.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:41.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:41.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:41.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:41.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:41.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.744][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:41.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:41.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:41.749][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-10-23 21:33:41.751][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:41.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:41.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.756][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:41.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:41.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.762][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:41.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:41.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:41.767][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:41.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:41.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:41.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:41.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:41.781][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:41.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:41.784][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-10-23 21:33:41.785][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:41.787][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:41.792][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-10-23 21:33:41.794][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:41.796][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:41.798][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:41.801][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:41.802][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:41.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:41.813][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:41.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:41.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:41.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:41.822][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:41.824][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:41.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.826][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:41.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:41.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.834][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:41.836][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:41.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.839][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.841][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:41.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:41.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.847][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:41.849][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:41.850][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.851][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.854][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:41.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:41.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.859][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:41.861][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:41.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.863][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.865][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:41.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:41.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.872][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:41.873][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:41.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.876][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.878][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:41.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:41.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.884][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:41.886][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:41.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.888][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.891][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:41.892][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:41.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.912][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.915][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:41.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:41.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.922][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:41.924][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:41.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.927][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:41.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:41.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.935][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:41.937][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:41.938][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.940][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.943][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:41.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:41.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.949][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:41.951][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:41.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.954][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.956][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:41.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:41.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.963][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:41.965][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:41.966][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.968][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.970][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:41.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:41.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:41.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:41.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.983][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:41.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:41.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.989][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:41.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:41.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:41.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:41.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:41.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:41.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.001][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.014][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.026][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:42.038][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-10-23 21:33:42.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:42.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:42.060][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:42.061][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:42.071][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:42.074][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:42.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:42.078][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:42.080][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-10-23 21:33:42.082][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:42.085][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:42.091][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-10-23 21:33:42.094][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:42.097][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:42.099][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:42.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:42.105][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:42.106][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:42.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:42.120][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:42.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:42.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:42.129][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.132][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.134][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.135][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.146][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:42.148][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:42.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.151][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.154][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:42.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:42.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.161][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:42.163][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:42.164][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.166][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.168][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:42.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:42.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.183][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:42.187][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:42.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.191][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.195][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:42.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:42.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.203][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:42.205][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:42.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.252][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.255][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:42.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:42.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.263][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:42.264][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:42.266][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.267][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.270][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:42.273][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.276][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.278][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:42.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.284][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:42.286][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:42.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.289][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:42.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:42.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.298][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:42.299][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:42.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.302][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.305][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:42.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:42.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.311][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:42.313][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:42.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.316][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.318][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:42.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:42.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.325][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:42.327][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:42.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.330][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.333][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:42.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:42.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.341][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:42.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:42.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:42.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:42.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.362][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:42.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:42.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.384][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:42.414][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-10-23 21:33:42.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.423][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:42.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:42.441][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:42.442][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:42.455][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:42.458][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:42.460][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:42.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:42.464][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-10-23 21:33:42.466][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:42.469][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:42.475][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-10-23 21:33:42.477][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:42.480][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:42.482][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:42.486][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:42.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:42.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:42.500][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:42.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:42.504][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:42.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:42.511][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.513][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.516][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.525][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:42.526][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:42.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.529][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.531][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:42.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:42.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.537][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:42.539][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:42.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.542][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.544][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:42.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:42.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.566][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:42.568][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:42.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.571][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.573][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:42.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:42.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.578][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:42.580][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:42.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.582][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.584][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:42.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:42.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.589][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:42.591][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:42.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.594][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.596][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:42.597][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.600][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.602][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:42.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.609][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:42.610][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:42.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.613][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:42.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:42.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.621][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:42.623][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:42.624][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.626][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.628][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:42.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:42.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.634][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:42.636][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:42.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.639][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.641][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:42.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:42.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.647][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:42.648][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:42.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.651][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.653][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:42.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:42.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.659][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:42.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:42.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:42.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:42.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:42.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:42.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.680][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.688][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.700][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.706][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:42.718][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-10-23 21:33:42.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.725][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.730][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:42.736][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:42.737][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:42.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:42.747][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:42.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:42.750][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:42.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:42.752][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-10-23 21:33:42.754][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:42.756][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:42.759][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-10-23 21:33:42.761][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:42.762][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:42.764][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:42.767][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:42.768][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:42.769][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:42.776][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:42.778][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:42.779][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:42.781][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.TRACE[2025-10-23 21:33:42.785][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.787][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.789][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.797][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:42.874][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:42.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.878][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.881][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:42.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:42.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.887][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:42.889][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:42.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.891][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.893][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:42.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:42.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.899][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:42.900][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:42.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.903][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.904][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:42.906][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:42.907][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.909][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.911][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:42.912][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:42.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.915][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.917][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:42.919][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.922][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.924][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:42.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:42.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.930][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:42.932][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:42.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.935][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.937][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:42.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:42.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.944][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:42.946][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:42.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.949][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.952][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:42.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:42.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.958][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:42.960][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:42.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.963][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.966][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:42.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:42.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.973][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:42.974][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:42.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.977][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.980][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:42.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:42.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.987][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:42.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:42.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:42.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:42.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:42.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:42.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.005][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.011][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.018][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.025][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.028][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.031][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:43.044][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-10-23 21:33:43.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.053][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.058][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:43.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:43.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:43.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:43.076][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:43.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:43.080][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:43.081][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:43.083][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-10-23 21:33:43.084][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:43.086][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:43.090][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-10-23 21:33:43.092][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:43.094][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:43.096][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:43.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:43.100][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:43.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:43.109][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:43.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:43.112][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:43.113][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:43.117][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.119][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.121][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.128][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:43.130][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:43.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.147][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.150][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:43.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:43.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.156][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:43.157][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:43.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.159][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.161][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:43.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:43.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.166][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:43.167][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:43.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.170][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.172][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:43.173][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:43.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.175][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.177][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:43.178][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:43.179][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.181][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.182][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:43.184][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.186][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.188][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:43.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.194][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:43.195][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:43.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.198][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:43.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:43.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.205][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:43.206][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:43.207][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.209][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.211][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:43.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:43.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.216][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:43.217][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:43.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.219][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.221][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:43.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:43.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.225][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:43.226][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:43.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.229][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.245][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.258][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.262][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.271][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:43.275][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-10-23 21:33:43.276][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.280][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:43.289][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:43.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:43.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:43.296][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:43.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:43.298][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:43.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:43.301][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-10-23 21:33:43.302][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:43.303][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:43.307][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-10-23 21:33:43.309][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:43.310][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:43.311][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:43.313][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:43.314][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:43.315][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:43.321][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:43.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:43.323][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:43.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:43.326][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.327][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.329][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.335][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:43.336][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:43.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.338][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.348][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:43.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:43.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.353][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:43.354][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:43.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.356][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.358][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:43.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:43.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.362][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:43.363][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:43.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.365][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.367][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:43.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:43.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.371][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:43.372][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:43.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.374][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.375][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:43.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:43.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.380][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:43.381][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:43.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.383][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.384][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:43.385][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.387][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.388][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:43.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.392][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:43.393][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:43.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.395][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.396][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:43.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:43.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.400][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:43.402][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:43.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.403][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.405][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:43.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:43.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.409][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:43.410][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:43.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.412][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.413][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:43.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:43.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.417][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:43.418][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:43.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.420][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.421][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:43.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:43.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.425][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.429][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.436][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.440][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.448][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:43.463][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-10-23 21:33:43.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.472][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:43.476][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:43.477][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:43.478][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:43.483][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:43.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:43.485][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:43.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:43.487][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-10-23 21:33:43.488][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:43.489][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:43.493][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-10-23 21:33:43.494][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:43.495][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:43.497][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:43.498][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:43.499][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:43.500][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:43.505][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:43.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:43.507][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:43.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:43.510][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.517][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.518][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.519][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.525][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:43.526][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:43.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.527][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.529][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:43.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:43.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.533][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:43.534][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:43.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.536][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.537][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:43.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:43.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.541][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:43.542][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:43.543][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.544][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.545][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:43.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:43.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.549][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:43.550][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:43.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.552][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.553][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:43.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:43.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.557][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:43.558][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:43.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.560][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.561][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:43.562][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.564][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.565][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:43.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.569][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:43.570][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:43.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.572][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:43.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:43.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.577][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:43.578][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:43.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.580][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.581][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:43.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:43.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.585][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:43.586][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:43.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.588][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.589][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:43.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:43.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.593][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:43.594][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:43.595][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.596][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.598][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:43.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:43.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:43.640][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-10-23 21:33:43.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.645][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.648][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:43.652][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:43.653][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:43.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:43.658][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:43.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:43.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:43.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:43.662][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-10-23 21:33:43.663][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:43.664][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:43.669][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-10-23 21:33:43.670][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:43.671][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:43.672][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:43.673][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:43.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:43.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:43.684][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:43.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:43.686][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:43.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:43.689][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.690][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.692][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.693][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.697][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:43.698][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:43.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.699][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.701][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:43.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:43.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.704][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:43.706][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:43.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.707][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.709][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:43.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:43.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.712][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:43.713][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:43.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.715][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.716][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:43.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:43.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.720][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:43.721][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:43.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.723][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.724][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:43.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:43.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.728][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:43.729][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:43.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.731][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.732][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:43.733][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.735][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.736][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:43.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.740][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:43.742][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:43.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.745][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:43.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:43.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.753][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:43.756][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:43.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.759][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.762][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:43.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:43.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.769][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:43.771][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:43.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.775][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.777][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:43.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:43.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.785][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:43.787][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:43.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.790][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.792][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:43.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:43.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.800][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.807][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:43.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.834][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.848][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:43.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:43.866][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:43.869][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-10-23 21:33:43.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.879][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:43.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:43.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:43.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:43.896][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:43.898][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:43.900][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:43.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:43.913][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:43.915][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:43.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:43.931][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-10-23 21:33:43.933][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:43.936][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:43.950][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-10-23 21:33:43.952][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:43.959][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:43.966][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:43.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:43.987][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:43.991][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:44.024][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:44.028][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:44.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:44.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:44.042][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.045][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.049][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.060][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:44.063][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:44.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.067][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.069][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:44.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:44.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.078][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:44.080][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:44.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.083][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.086][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:44.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:44.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.093][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:44.095][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:44.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.099][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.101][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:44.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:44.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.110][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:44.112][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:44.113][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.115][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.118][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:44.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:44.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.125][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:44.127][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:44.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.130][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.133][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:44.135][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.139][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.144][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:44.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.154][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:44.157][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:44.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.161][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.164][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:44.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:44.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.172][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:44.175][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:44.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.179][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.188][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:44.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:44.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.212][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:44.215][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:44.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.219][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.222][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:44.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:44.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.231][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:44.233][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:44.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.237][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.240][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:44.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:44.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.248][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.263][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.270][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.290][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:44.309][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-10-23 21:33:44.310][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:44.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:44.329][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:44.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:44.335][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:44.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:44.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:44.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:44.339][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-10-23 21:33:44.340][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:44.341][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:44.345][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-10-23 21:33:44.346][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:44.348][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:44.349][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:44.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:44.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:44.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:44.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:44.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:44.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:44.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:44.362][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.363][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.364][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.365][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.371][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:44.372][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:44.373][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.374][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.375][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:44.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:44.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.379][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:44.380][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:44.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.382][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.383][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:44.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:44.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.388][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:44.389][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:44.390][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.391][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.392][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:44.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:44.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.396][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:44.397][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:44.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.399][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.400][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:44.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:44.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.404][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:44.406][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:44.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.407][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.409][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:44.410][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.412][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.413][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:44.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.417][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:44.418][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:44.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.420][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.421][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:44.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:44.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.425][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:44.426][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:44.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.428][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.429][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:44.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:44.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.433][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:44.434][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:44.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.436][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.438][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:44.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:44.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.442][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:44.443][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:44.444][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.445][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.446][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:44.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:44.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.450][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.471][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:44.496][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-10-23 21:33:44.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.505][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:44.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:44.509][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:44.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:44.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:44.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:44.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:44.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:44.518][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-10-23 21:33:44.519][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:44.521][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:44.524][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-10-23 21:33:44.525][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:44.526][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:44.527][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:44.529][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:44.529][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:44.530][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:44.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:44.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:44.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:44.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:44.539][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.540][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.542][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.543][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.547][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:44.548][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:44.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.550][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.551][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:44.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:44.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.555][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:44.556][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:44.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.558][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.560][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:44.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:44.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.564][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:44.565][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:44.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.566][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.568][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:44.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:44.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.572][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:44.573][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:44.573][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.574][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.576][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:44.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:44.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.579][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:44.580][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:44.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.582][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.583][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:44.585][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.586][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.587][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:44.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.591][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:44.592][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:44.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.594][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:44.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:44.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.599][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:44.600][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:44.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.602][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.604][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:44.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:44.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.608][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:44.609][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:44.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.611][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.612][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:44.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:44.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.616][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:44.617][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:44.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.619][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.620][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:44.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:44.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.628][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.643][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.660][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:44.667][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-10-23 21:33:44.668][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.672][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.676][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:44.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:44.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:44.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:44.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:44.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:44.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:44.689][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[2025-10-23 21:33:44.690][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-10-23 21:33:44.691][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:44.692][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:44.695][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-10-23 21:33:44.696][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:44.698][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:44.699][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:44.700][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:44.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:44.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:44.707][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:44.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:44.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:44.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:44.712][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.713][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.715][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.720][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:44.721][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:44.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.723][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.724][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:44.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:44.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.728][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:44.729][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:44.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.731][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.732][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:44.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:44.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.736][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:44.737][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:44.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.739][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.740][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:44.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:44.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.744][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:44.745][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:44.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.747][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.748][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:44.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:44.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.752][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:44.753][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:44.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.755][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.756][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:44.757][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.759][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.760][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:44.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.764][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:44.765][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:44.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.767][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:44.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:44.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.772][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:44.773][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:44.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.775][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.776][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:44.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:44.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.781][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:44.782][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:44.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.783][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.785][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:44.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:44.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.789][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:44.790][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:44.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.792][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.793][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:44.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:44.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.809][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:44.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.827][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.832][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.839][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:44.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:44.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:44.843][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-10-23 21:33:44.844][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.848][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.852][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 21:33:44.872][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 21:33:44.875][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:44.878][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 21:33:44.879][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:44.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:44.883][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:44.884][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:44.889][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:44.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:44.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:44.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:44.893][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:44.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:44.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:44.906][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:44.910][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:44.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:44.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:44.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:44.914][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.918][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.922][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.926][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.930][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:44.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:44.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:44.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:44.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:44.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:44.943][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:44.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:44.945][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.949][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:44.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:44.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:44.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:44.973][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:44.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:44.974][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:44.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:44.977][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.988][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.992][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:44.996][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:44.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:44.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.000][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:45.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.005][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.013][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:45.015][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.023][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:45.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.027][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.028][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.033][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.034][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.035][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:45.037][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:45.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.055][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:45.059][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.063][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.067][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:45.071][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.072][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.077][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:45.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.088][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:45.092][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.093][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.101][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:45.103][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.111][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:45.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.117][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.122][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.124][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:45.126][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:45.138][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.139][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.144][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.145][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:45.153][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.157][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:45.165][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.166][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.172][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:45.175][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.183][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:45.187][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.188][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.193][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.194][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.195][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.196][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:45.197][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.201][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.205][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:45.209][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.210][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.215][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.217][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:45.219][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.223][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.226][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:45.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:45.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.248][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:45.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:45.262][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:45.274][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.275][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.283][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:45.285][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:45.296][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.297][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.298][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.303][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.304][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.304][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:45.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:45.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.325][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.332][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:45.334][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.338][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.342][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:45.346][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.348][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.353][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.354][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:45.356][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.360][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.364][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.381][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.386][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.394][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.398][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 21:33:45.427][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 21:33:45.430][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:45.432][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-10-23 21:33:45.433][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 21:33:45.437][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 21:33:45.440][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:45.443][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-10-23 21:33:45.444][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:45.447][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.448][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.449][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:45.458][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-10-23 21:33:45.459][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:45.461][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:45.466][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-10-23 21:33:45.467][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:45.468][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:45.469][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:45.471][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.472][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.473][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.489][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.490][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.491][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.492][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:45.494][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:45.496][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:45.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.497][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.499][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:45.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:45.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.503][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:45.504][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:45.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.506][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.507][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:45.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:45.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.511][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:45.512][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:45.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.514][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.516][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:45.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:45.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.520][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:45.521][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:45.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.523][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.524][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:45.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:45.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.528][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:45.530][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:45.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.531][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.533][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:45.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:45.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.537][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:45.538][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:45.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.540][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.541][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:45.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:45.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.545][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:45.546][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.548][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.549][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:45.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:45.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.553][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.554][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.556][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.561][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:45.562][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:45.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.564][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.566][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:45.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:45.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.570][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:45.571][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:45.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.573][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.574][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:45.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:45.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.578][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:45.579][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:45.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.581][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.582][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:45.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:45.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.586][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:45.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:45.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:45.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:45.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.594][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:45.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:45.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.598][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:45.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:45.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:45.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:45.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:45.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:45.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.611][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:45.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:45.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:45.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:45.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.619][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:45.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:45.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:45.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:45.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:45.631][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-10-23 21:33:45.632][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.645][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:45.652][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.653][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.673][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.677][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.679][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:45.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.705][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:45.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:45.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.722][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.736][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.739][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:45.743][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-10-23 21:33:45.744][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:45.746][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:45.760][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-10-23 21:33:45.762][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:45.769][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:45.775][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:45.781][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:45.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:45.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:45.810][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:45.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:45.817][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:45.826][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:45.829][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:45.835][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:45.837][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.838][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.843][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:45.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:45.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.858][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:45.859][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:45.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.866][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.868][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:45.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:45.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.889][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:45.895][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:45.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.906][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.918][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:45.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:45.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.960][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:45.968][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:45.975][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:45.983][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:45.992][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:46.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:46.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.022][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:46.029][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:46.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.033][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.036][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:46.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:46.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.047][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:46.054][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:46.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.062][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.068][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:46.075][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:46.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.085][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.092][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:46.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:46.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.116][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.121][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.123][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.125][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.138][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:46.140][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:46.142][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.145][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.148][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:46.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:46.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.157][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:46.160][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:46.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.163][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.166][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:46.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:46.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.174][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:46.176][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:46.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.179][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.182][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:46.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:46.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.189][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:46.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:46.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:46.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:46.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:46.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:46.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:46.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:46.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.211][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:46.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:46.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.216][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:46.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:46.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.232][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:46.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:46.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:46.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:46.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.245][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:46.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:46.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:46.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:46.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.256][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-10-23 21:33:46.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.270][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 21:33:46.301][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 21:33:46.305][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:46.310][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 21:33:46.312][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:46.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.318][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.326][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.328][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.329][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.330][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.334][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.342][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.343][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.344][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.348][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.349][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.350][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.352][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.356][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.360][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.372][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.373][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.374][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.379][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.380][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.403][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.404][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.405][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.409][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.410][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.411][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.417][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.438][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.442][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.443][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.452][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.456][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.460][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.464][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.465][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.466][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.471][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.473][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.479][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.487][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.494][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.495][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.496][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.498][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.506][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.518][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.520][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.524][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.528][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.541][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.552][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.558][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.567][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.571][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.575][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.579][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.581][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.586][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.587][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.590][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.603][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.607][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.608][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.609][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.614][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.628][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.637][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.638][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.640][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.645][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.654][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.661][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.662][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.663][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.674][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.679][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.685][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.686][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.687][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.688][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.689][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.693][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.701][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.702][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.703][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.708][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.709][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.710][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.716][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.724][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.725][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.730][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.732][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.742][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.746][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.747][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.754][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.773][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.786][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.794][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.794][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.804][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.812][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 21:33:46.832][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 21:33:46.835][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:46.838][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-10-23 21:33:46.839][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:46.843][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.843][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.844][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.849][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.849][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.850][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.851][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.860][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.870][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.872][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.878][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.890][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.905][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.931][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.932][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.939][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.949][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.953][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.957][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.961][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.961][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.967][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.974][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:46.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:46.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:46.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:46.988][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:46.989][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:46.990][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:46.991][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:46.992][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:46.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:46.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:46.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.000][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:47.004][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.004][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.005][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.010][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.012][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:47.014][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:47.026][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.032][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:47.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.044][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:47.048][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.049][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.054][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.056][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:47.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.062][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:47.070][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.071][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.077][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.078][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:47.080][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:47.098][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.098][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.099][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.104][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:47.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.111][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.115][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:47.119][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.120][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.121][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.125][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.126][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.127][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.128][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:47.129][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.137][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:47.141][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.142][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.147][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:47.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.159][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:47.162][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.163][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.164][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:47.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.177][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.181][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.182][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:47.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.193][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:47.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:47.208][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:47.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.222][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.226][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:47.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.236][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.237][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.238][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.239][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:47.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.244][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.258][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:47.262][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.263][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.270][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:47.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.276][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.280][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:47.284][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.285][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.286][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.291][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.293][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:47.297][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.303][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:47.317][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.319][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.329][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:47.338][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.346][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.389][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-23 21:33:47.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-23 21:33:47.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-23 21:33:47.410][biodb::testThat]
biodb.INFO [2025-10-23 21:33:47.412][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-10-23 21:33:47.414][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:47.416][biodb::testThat]
biodb.TRACE[2025-10-23 21:33:47.421][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-23 21:33:47.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-23 21:33:47.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.430][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.448][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:47.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.470][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.481][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.486][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.487][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 21:33:47.492][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 21:33:47.499][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:47.503][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-23 21:33:47.506][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:47.512][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.515][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.518][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.534][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.544][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:47.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.560][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 21:33:47.607][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 21:33:47.612][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:47.617][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-23 21:33:47.620][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:47.626][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.628][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.642][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.644][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.649][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:47.651][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.662][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.670][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:47.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.682][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:47.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.705][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:47.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:47.718][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-23 21:33:47.721][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.722][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.730][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.732][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.734][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:47.737][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.743][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.749][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:47.751][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 21:33:47.752][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 21:33:47.754][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 21:33:47.755][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:47.757][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.758][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.761][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.762][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.764][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.767][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.769][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:47.770][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:47.772][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.773][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.776][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.778][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 21:33:47.780][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.786][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.792][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.817][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-23 21:33:47.819][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.820][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.822][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.834][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.836][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:47.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.841][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.851][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:47.852][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 21:33:47.853][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 21:33:47.854][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 21:33:47.855][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:47.856][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.857][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.859][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.860][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.861][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.863][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.864][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:47.865][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:47.871][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.873][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.874][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.875][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.877][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 21:33:47.878][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.882][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.886][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.890][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-23 21:33:47.892][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:47.893][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:47.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:47.898][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:47.899][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:47.900][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:47.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:47.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.910][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:47.911][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 21:33:47.912][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 21:33:47.913][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 21:33:47.914][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:47.915][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.916][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.918][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.919][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.920][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.922][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.923][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:47.924][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:47.925][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.926][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.927][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.928][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.929][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 21:33:47.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.939][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:47.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.944][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-23 21:33:47.945][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-23 21:33:47.946][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-23 21:33:47.955][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:47.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:47.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:47.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:48.034][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:48.035][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:48.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:48.041][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:48.042][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:48.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:48.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 21:33:48.046][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 21:33:48.048][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:48.050][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-23 21:33:48.051][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 21:33:48.054][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 21:33:48.057][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:48.060][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-23 21:33:48.061][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:48.063][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:48.064][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:48.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:48.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:48.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:48.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:48.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:48.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:48.087][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:48.088][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:48.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:48.093][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:48.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:48.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:48.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:48.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:48.110][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:48.110][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:48.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:48.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:48.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:48.118][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:48.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:48.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:48.157][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-23 21:33:48.187][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:48.188][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:48.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:48.194][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:48.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:48.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:48.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:48.198][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.206][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.207][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 21:33:48.208][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 21:33:48.209][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 21:33:48.210][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.211][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.212][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.214][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.215][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.216][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.217][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.217][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.218][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.219][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.220][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.221][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.223][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.224][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 21:33:48.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.237][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-23 21:33:48.238][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:48.239][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:48.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:48.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:48.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:48.246][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:48.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:48.260][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.265][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.290][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.291][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 21:33:48.292][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 21:33:48.293][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 21:33:48.294][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.295][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.296][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.298][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.299][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.300][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.301][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.302][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.303][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.313][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.314][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.316][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.316][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.317][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.318][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 21:33:48.319][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.323][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.333][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.337][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-23 21:33:48.338][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:48.339][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:48.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:48.344][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:48.345][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:48.346][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:48.347][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:48.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.356][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.357][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 21:33:48.358][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 21:33:48.359][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 21:33:48.360][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.361][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.362][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.363][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.364][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.365][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.366][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.367][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.368][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.369][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.370][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.371][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.373][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.374][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 21:33:48.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.379][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.383][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.387][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-23 21:33:48.388][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-23 21:33:48.389][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-23 21:33:48.397][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-23 21:33:48.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-23 21:33:48.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-23 21:33:48.404][biodb::testThat]
biodb.INFO [2025-10-23 21:33:48.405][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-10-23 21:33:48.406][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:48.407][biodb::testThat]
biodb.TRACE[2025-10-23 21:33:48.410][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-23 21:33:48.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-23 21:33:48.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.413][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.418][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:48.432][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:48.433][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:48.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:48.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:48.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:48.440][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:48.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 21:33:48.444][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 21:33:48.464][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:48.467][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-23 21:33:48.468][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:48.470][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:48.471][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:48.472][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:48.477][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:48.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:48.479][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:48.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:48.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.493][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 21:33:48.501][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 21:33:48.503][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:48.505][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-23 21:33:48.506][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:48.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:48.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:48.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:48.516][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:48.517][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:48.518][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:48.519][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:48.520][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.524][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.528][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:48.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:48.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:48.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:48.538][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:48.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:48.540][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:48.541][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:48.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.550][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:48.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:48.554][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-23 21:33:48.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:48.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:48.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:48.562][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:48.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:48.564][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:48.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:48.566][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.574][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.575][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 21:33:48.576][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 21:33:48.577][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 21:33:48.578][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.578][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.580][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.581][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.582][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.583][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.585][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.586][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.587][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.588][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.589][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.590][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.591][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.592][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 21:33:48.593][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.597][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.605][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-23 21:33:48.606][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:48.607][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:48.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:48.613][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:48.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:48.614][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:48.615][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.TRACE[2025-10-23 21:33:48.617][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.621][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.625][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.626][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 21:33:48.627][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 21:33:48.627][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 21:33:48.628][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.630][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.631][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.633][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.634][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.635][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.637][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.638][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.639][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.640][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.641][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.643][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.644][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 21:33:48.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.655][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.664][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-23 21:33:48.665][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:48.666][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:48.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:48.672][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:48.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:48.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:48.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:48.676][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.680][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.684][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.685][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 21:33:48.686][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 21:33:48.687][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 21:33:48.688][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.689][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.690][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.692][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.693][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.694][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.696][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.697][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.698][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:48.699][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.700][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.702][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.704][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 21:33:48.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.712][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:48.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.727][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-23 21:33:48.729][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-23 21:33:48.731][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-23 21:33:48.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.759][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.767][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.774][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:48.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:48.786][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:48.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:48.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:48.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:48.798][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:48.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 21:33:48.804][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 21:33:48.808][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:48.811][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-23 21:33:48.813][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 21:33:48.818][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 21:33:48.822][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:48.826][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-23 21:33:48.828][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:48.833][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:48.834][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:48.836][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:48.844][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:48.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:48.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:48.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:48.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.857][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:48.882][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:48.884][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:48.889][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:48.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:48.906][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:48.911][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:48.912][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:48.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.930][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:48.966][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:48.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:48.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:48.994][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:48.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:49.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:49.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:49.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:49.016][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:49.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:49.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:49.046][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-23 21:33:49.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:49.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:49.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:49.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:49.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:49.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:49.068][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:49.071][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.085][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.087][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 21:33:49.089][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 21:33:49.090][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 21:33:49.092][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.098][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.105][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.110][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.117][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.125][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.137][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.139][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.141][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.143][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.146][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.150][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.152][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 21:33:49.154][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.180][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-23 21:33:49.183][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:49.185][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:49.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:49.198][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:49.200][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:49.203][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:49.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:49.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.215][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.224][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.226][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 21:33:49.227][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 21:33:49.229][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 21:33:49.231][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.233][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.235][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.237][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.238][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.240][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.241][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.242][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.243][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.245][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.246][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.248][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.249][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.252][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.254][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 21:33:49.256][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.269][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.275][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-23 21:33:49.277][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:49.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:49.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:49.288][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:49.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:49.291][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:49.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:49.295][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.301][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.307][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.309][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 21:33:49.310][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 21:33:49.312][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 21:33:49.322][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.324][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.326][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.329][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.331][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.333][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.335][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.337][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.339][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.340][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.342][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.344][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.346][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 21:33:49.347][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.351][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.359][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-23 21:33:49.360][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-23 21:33:49.361][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-23 21:33:49.369][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-23 21:33:49.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-23 21:33:49.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-23 21:33:49.376][biodb::testThat]
biodb.INFO [2025-10-23 21:33:49.377][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-10-23 21:33:49.378][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:49.379][biodb::testThat]
biodb.TRACE[2025-10-23 21:33:49.382][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-10-23 21:33:49.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-10-23 21:33:49.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.386][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.393][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:49.405][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:49.406][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:49.407][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:49.412][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:49.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:49.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:49.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 21:33:49.417][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 21:33:49.420][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:49.422][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-10-23 21:33:49.423][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:49.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:49.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:49.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:49.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:49.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:49.433][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:49.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:49.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-10-23 21:33:49.448][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 21:33:49.450][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:49.453][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-10-23 21:33:49.454][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:49.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:49.457][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:49.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:49.463][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:49.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:49.465][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:49.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:49.467][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.471][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.475][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:49.479][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:49.480][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:49.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:49.485][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:49.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:49.487][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:49.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:49.489][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.502][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:49.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:49.506][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-23 21:33:49.508][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:49.509][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:49.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:49.514][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:49.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:49.516][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:49.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:49.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.522][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.526][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.527][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 21:33:49.527][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 21:33:49.528][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 21:33:49.529][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.530][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.531][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.533][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.534][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.535][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.537][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.538][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.539][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.540][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.541][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.543][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.544][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 21:33:49.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.553][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.557][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-10-23 21:33:49.558][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:49.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:49.560][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:49.565][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:49.566][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:49.566][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:49.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:49.569][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.572][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.576][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.577][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 21:33:49.578][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 21:33:49.579][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 21:33:49.580][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.581][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.582][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.583][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.584][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.585][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.586][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.588][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.589][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.590][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.591][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.592][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.594][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.595][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 21:33:49.596][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.600][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.604][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.608][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-23 21:33:49.609][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:49.610][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:49.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:49.616][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:49.617][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:49.617][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:49.618][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:49.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.624][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.627][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.628][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 21:33:49.629][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 21:33:49.630][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 21:33:49.631][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.632][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.633][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.635][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.636][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.637][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.639][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.640][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.641][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.642][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.643][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.645][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.646][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 21:33:49.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.666][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-10-23 21:33:49.667][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-23 21:33:49.668][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-23 21:33:49.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.698][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:49.705][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:49.706][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:49.707][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:49.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:49.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:49.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:49.714][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 21:33:49.717][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 21:33:49.720][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:49.722][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-10-23 21:33:49.723][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 21:33:49.726][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-10-23 21:33:49.728][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:49.731][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-10-23 21:33:49.731][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:49.734][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:49.735][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:49.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:49.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:49.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:49.742][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:49.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:49.744][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.753][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:49.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:49.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:49.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:49.764][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:49.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:49.766][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:49.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:49.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:49.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:49.783][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:49.784][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:49.789][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:49.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:49.791][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:49.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:49.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:49.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:49.806][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-10-23 21:33:49.808][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:49.809][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:49.810][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:49.815][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:49.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:49.824][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:49.825][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:49.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.831][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.834][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.835][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 21:33:49.836][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 21:33:49.837][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 21:33:49.838][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.839][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.840][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.842][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.843][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.844][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.846][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.847][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.848][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.849][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.850][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.852][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.853][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 21:33:49.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.862][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.867][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-10-23 21:33:49.868][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:49.869][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:49.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:49.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:49.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:49.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:49.877][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:49.878][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.883][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.887][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.887][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 21:33:49.888][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 21:33:49.889][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 21:33:49.890][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.891][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.892][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.894][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.895][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.896][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.898][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.899][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.900][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.901][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.902][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.904][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.905][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 21:33:49.906][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.910][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.918][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-10-23 21:33:49.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:49.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:49.921][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:49.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:49.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:49.927][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:49.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:49.929][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.933][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.937][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.938][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-10-23 21:33:49.939][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-10-23 21:33:49.940][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-10-23 21:33:49.941][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.942][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.943][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.945][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.946][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.947][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.949][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.950][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.951][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-10-23 21:33:49.952][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.953][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.954][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.955][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.956][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-10-23 21:33:49.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.961][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:49.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:49.969][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-10-23 21:33:49.970][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-10-23 21:33:49.971][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-10-23 21:33:49.996][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-10-23 21:33:49.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-10-23 21:33:49.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:49.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-10-23 21:33:50.003][biodb::testThat]
biodb.INFO [2025-10-23 21:33:50.004][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-10-23 21:33:50.005][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:50.005][biodb::testThat]
biodb.DEBUG[2025-10-23 21:33:50.007][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-10-23 21:33:50.008][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:50.010][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:50.012][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-10-23 21:33:50.013][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:50.014][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:50.015][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:50.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:50.018][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:50.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:50.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:50.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:50.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:50.028][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.029][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.031][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.036][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:50.037][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:50.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.039][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.040][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:50.041][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:50.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.043][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.045][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:50.046][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:50.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.047][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.049][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:50.050][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:50.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.052][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.053][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:50.054][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:50.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.056][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.057][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:50.058][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:50.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.060][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.061][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:50.062][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:50.063][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.064][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.065][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:50.066][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:50.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.068][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.069][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:50.070][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:50.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.072][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.073][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:50.074][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:50.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.076][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.093][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:50.117][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-10-23 21:33:50.118][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-10-23 21:33:50.125][biodb::testThat]
biodb.INFO [2025-10-23 21:33:50.126][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-10-23 21:33:50.127][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:50.128][biodb::testThat]
biodb.DEBUG[2025-10-23 21:33:50.142][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-10-23 21:33:50.144][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-10-23 21:33:50.145][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-10-23 21:33:50.147][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:50.149][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-10-23 21:33:50.152][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-10-23 21:33:50.156][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-10-23 21:33:50.157][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:50.159][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-10-23 21:33:50.160][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:50.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:50.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:50.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:50.167][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:50.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:50.169][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.170][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:50.172][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.173][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.175][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.180][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:50.181][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:50.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.183][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.184][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:50.185][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:50.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.187][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.188][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:50.189][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:50.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.191][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.192][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:50.193][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:50.194][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.195][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.196][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:50.197][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:50.198][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.199][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.200][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:50.201][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:50.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.203][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.204][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:50.205][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:50.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.207][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.208][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:50.209][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:50.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.211][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.213][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:50.214][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:50.215][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.215][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.217][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:50.218][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:50.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.219][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.228][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.232][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.240][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:50.248][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:50.248][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:50.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:50.254][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:50.255][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:50.256][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:50.259][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.260][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.261][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.262][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.268][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:50.269][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:50.270][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.271][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.272][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:50.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:50.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.276][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:50.277][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:50.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.279][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.281][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:50.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:50.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.285][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:50.286][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:50.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.288][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.289][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:50.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:50.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.293][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:50.294][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:50.295][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.296][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.297][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:50.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:50.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.307][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:50.309][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:50.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.310][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.312][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:50.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:50.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.316][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:50.317][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:50.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.319][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.320][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:50.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:50.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.324][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:50.325][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:50.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.327][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:50.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:50.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.332][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:50.333][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:50.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.335][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.336][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:50.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:50.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.340][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:50.341][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:50.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.343][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.344][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:50.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:50.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.348][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:50.349][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:50.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.351][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.352][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:50.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:50.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.356][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.360][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.364][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.368][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:50.384][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:50.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:50.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:50.390][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:50.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:50.392][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:50.395][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.396][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.398][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.403][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:50.404][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:50.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.406][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.407][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:50.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:50.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.411][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:50.412][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:50.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.414][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.415][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:50.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:50.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.419][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:50.420][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:50.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.422][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.424][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:50.425][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:50.426][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.428][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:50.429][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:50.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.431][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.432][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:50.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:50.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.436][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:50.437][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:50.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.439][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.440][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:50.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:50.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.444][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:50.445][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:50.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.447][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.448][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:50.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:50.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.453][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:50.454][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:50.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.456][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.464][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:50.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:50.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.469][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:50.470][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:50.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.472][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.474][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:50.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:50.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.478][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:50.479][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:50.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.481][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.482][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:50.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:50.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.486][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:50.487][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:50.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.489][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.490][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:50.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:50.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.498][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:50.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.522][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.530][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.533][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.537][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.541][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.549][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.552][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:50.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:50.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:50.556][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-10-23 21:33:50.557][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-10-23 21:33:50.558][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-10-23 21:33:50.570][biodb::testThat]
biodb.INFO [2025-10-23 21:33:50.571][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-10-23 21:33:50.572][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:50.573][biodb::testThat]
biodb.INFO [2025-10-23 21:33:50.595][biodb::testThat]
biodb.INFO [2025-10-23 21:33:50.597][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-10-23 21:33:50.598][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:50.599][biodb::testThat]
biodb.INFO [2025-10-23 21:33:50.606][biodb::testThat]
biodb.INFO [2025-10-23 21:33:50.607][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-10-23 21:33:50.608][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:50.609][biodb::testThat]
sched.DEBUG[2025-10-23 21:33:50.611][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-10-23 21:33:50.619][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:50.625][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-10-23 21:33:50.626][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-10-23 21:33:50.636][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:50.637][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:50.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.639][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:50.640][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:50.641][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:50.642][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:50.643][ef$get] fields variable is a list.
biodb.INFO [2025-10-23 21:33:50.645][biodb::testThat]
biodb.INFO [2025-10-23 21:33:50.645][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-10-23 21:33:50.646][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:50.647][biodb::testThat]
biodb.ERROR[2025-10-23 21:33:50.660][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-10-23 21:33:50.676][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-10-23 21:33:50.689][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-23 21:33:50.690][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-23 21:33:50.691][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-23 21:33:50.692][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:50.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:50.694][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:50.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:50.696][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-23 21:33:50.706][biodb::testContext]
biodb.INFO [2025-10-23 21:33:50.707][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 21:33:50.708][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-10-23 21:33:50.709][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 21:33:50.710][biodb::testContext]
biodb.INFO [2025-10-23 21:33:50.712][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-23 21:33:50.714][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-23 21:33:50.718][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 21:33:50.719][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-23 21:33:50.720][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-23 21:33:50.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.724][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-23 21:33:50.725][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-23 21:33:50.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.729][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-23 21:33:50.730][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-23 21:33:50.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.734][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-23 21:33:50.735][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-23 21:33:50.736][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-23 21:33:50.737][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.740][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-23 21:33:50.741][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-23 21:33:50.742][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-23 21:33:50.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.746][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-23 21:33:50.747][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-23 21:33:50.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.751][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-23 21:33:50.752][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-23 21:33:50.753][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-23 21:33:50.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.756][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-23 21:33:50.757][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-23 21:33:50.758][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.760][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.761][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-23 21:33:50.762][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-23 21:33:50.763][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-23 21:33:50.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.766][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.767][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-23 21:33:50.768][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-23 21:33:50.769][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-23 21:33:50.770][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-23 21:33:50.771][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-23 21:33:50.772][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-23 21:33:50.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.782][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-23 21:33:50.783][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-23 21:33:50.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.786][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[2025-10-23 21:33:50.787][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-23 21:33:50.788][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-23 21:33:50.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.792][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-23 21:33:50.793][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-23 21:33:50.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.795][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[2025-10-23 21:33:50.796][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-23 21:33:50.797][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-23 21:33:50.798][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-23 21:33:50.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.801][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-23 21:33:50.802][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-23 21:33:50.806][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-23 21:33:50.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.808][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[2025-10-23 21:33:50.809][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-23 21:33:50.810][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-23 21:33:50.811][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-23 21:33:50.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.815][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-23 21:33:50.817][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:50.818][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-23 21:33:50.819][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:50.820][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 21:33:50.820][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:50.821][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 21:33:50.822][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:50.823][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 21:33:50.824][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 21:33:50.825][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 21:33:50.826][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:50.827][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-23 21:33:50.828][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 21:33:50.829][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:50.830][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:50.831][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 21:33:50.831][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 21:33:50.831][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 21:33:50.831][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 21:33:50.831][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 21:33:50.832][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 21:33:50.833][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:50.834][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:50.835][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 21:33:50.836][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:50.837][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:50.838][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 21:33:50.839][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:50.840][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 21:33:50.841][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 21:33:50.842][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:50.843][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:50.844][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-23 21:33:50.846][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:50.847][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 21:33:50.848][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:50.849][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 21:33:50.850][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:50.851][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 21:33:50.852][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:50.853][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 21:33:50.854][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 21:33:50.855][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 21:33:50.856][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:50.857][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-23 21:33:50.858][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 21:33:50.859][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:50.860][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:50.861][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 21:33:50.861][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 21:33:50.861][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 21:33:50.861][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 21:33:50.861][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 21:33:50.862][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 21:33:50.863][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:50.863][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:50.864][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 21:33:50.865][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:50.866][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:50.867][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 21:33:50.868][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:50.869][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 21:33:50.870][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 21:33:50.871][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:50.872][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:50.873][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-23 21:33:50.875][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:50.876][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-23 21:33:50.877][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:50.878][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 21:33:50.879][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:50.880][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 21:33:50.881][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:50.882][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 21:33:50.883][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 21:33:50.884][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 21:33:50.885][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:50.886][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-23 21:33:50.887][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 21:33:50.888][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:50.889][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:50.890][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:50.891][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 21:33:50.892][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:50.893][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:50.894][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 21:33:50.895][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:50.895][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:50.896][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 21:33:50.897][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:50.898][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 21:33:50.899][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 21:33:50.900][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:50.901][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:50.902][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-23 21:33:50.904][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:50.905][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 21:33:50.906][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:50.907][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 21:33:50.908][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:50.909][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 21:33:50.910][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:50.911][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 21:33:50.912][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 21:33:50.913][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 21:33:50.914][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:50.915][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-23 21:33:50.916][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 21:33:50.917][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:50.918][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:50.919][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:50.920][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 21:33:50.921][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:50.922][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:50.923][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 21:33:50.924][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:50.925][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:50.926][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 21:33:50.927][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:50.933][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 21:33:50.934][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 21:33:50.935][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:50.936][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:50.938][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 21:33:50.939][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.940][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:50.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:50.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:50.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:50.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:50.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:50.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.953][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:50.955][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:50.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.957][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.958][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:50.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:50.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.962][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.963][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:50.964][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:50.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:50.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:50.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.971][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:50.972][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:50.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.974][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.975][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.976][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:50.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:50.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:50.979][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:50.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:50.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.983][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.DEBUG[2025-10-23 21:33:50.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:50.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:50.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.987][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[2025-10-23 21:33:50.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:50.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:50.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.992][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[2025-10-23 21:33:50.993][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:50.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:50.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:50.997][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[2025-10-23 21:33:50.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:50.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:50.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.001][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[2025-10-23 21:33:51.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.011][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-23 21:33:51.013][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-23 21:33:51.014][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-23 21:33:51.016][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-23 21:33:51.017][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 21:33:51.018][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-23 21:33:51.020][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-23 21:33:51.021][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-23 21:33:51.023][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-23 21:33:51.024][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-23 21:33:51.026][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 21:33:51.027][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-23 21:33:51.029][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-23 21:33:51.030][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-23 21:33:51.031][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-23 21:33:51.033][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-23 21:33:51.034][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-23 21:33:51.036][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-23 21:33:51.037][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 21:33:51.039][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-23 21:33:51.040][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-23 21:33:51.042][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-23 21:33:51.043][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-23 21:33:51.044][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-23 21:33:51.046][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-23 21:33:51.047][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-23 21:33:51.049][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-23 21:33:51.050][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-23 21:33:51.051][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-23 21:33:51.053][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-23 21:33:51.054][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-23 21:33:51.056][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-23 21:33:51.057][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-23 21:33:51.058][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-23 21:33:51.060][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-23 21:33:51.061][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-23 21:33:51.062][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-23 21:33:51.064][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-23 21:33:51.065][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-23 21:33:51.067][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-23 21:33:51.068][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-23 21:33:51.070][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-23 21:33:51.071][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-23 21:33:51.072][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-23 21:33:51.074][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-23 21:33:51.076][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-23 21:33:51.077][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-23 21:33:51.084][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-23 21:33:51.086][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-23 21:33:51.088][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-23 21:33:51.090][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-23 21:33:51.091][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-23 21:33:51.093][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-23 21:33:51.094][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-23 21:33:51.095][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-23 21:33:51.097][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-23 21:33:51.098][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-23 21:33:51.099][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-23 21:33:51.101][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-23 21:33:51.102][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-23 21:33:51.103][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-23 21:33:51.105][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-23 21:33:51.106][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-23 21:33:51.107][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-23 21:33:51.109][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-23 21:33:51.110][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-23 21:33:51.111][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 21:33:51.113][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 21:33:51.114][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-23 21:33:51.115][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-23 21:33:51.117][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-23 21:33:51.118][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-23 21:33:51.120][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-23 21:33:51.121][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-23 21:33:51.122][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-23 21:33:51.124][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-23 21:33:51.125][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-23 21:33:51.126][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-23 21:33:51.128][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-23 21:33:51.129][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-23 21:33:51.130][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-23 21:33:51.132][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-23 21:33:51.133][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-23 21:33:51.139][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-23 21:33:51.140][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-23 21:33:51.141][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 21:33:51.142][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.143][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.144][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.153][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.155][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.159][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.161][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.164][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.182][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.220][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.413][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.419][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[2025-10-23 21:33:51.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.425][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[2025-10-23 21:33:51.427][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-23 21:33:51.428][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-23 21:33:51.430][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:51.431][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-23 21:33:51.432][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.433][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 21:33:51.434][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.435][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 21:33:51.436][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.436][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-23 21:33:51.437][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-23 21:33:51.438][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 21:33:51.439][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.440][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-23 21:33:51.441][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 21:33:51.442][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-23 21:33:51.442][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-23 21:33:51.442][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-23 21:33:51.442][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-23 21:33:51.442][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-23 21:33:51.442][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-23 21:33:51.442][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-23 21:33:51.442][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-23 21:33:51.442][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-23 21:33:51.442][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-23 21:33:51.442][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-23 21:33:51.443][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:51.444][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 21:33:51.444][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 21:33:51.444][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 21:33:51.445][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-23 21:33:51.446][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:51.447][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:51.448][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 21:33:51.449][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:51.450][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:51.450][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 21:33:51.451][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-23 21:33:51.451][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-23 21:33:51.452][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 21:33:51.453][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 21:33:51.454][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.455][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-23 21:33:51.455][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-23 21:33:51.456][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 21:33:51.458][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 21:33:51.459][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-23 21:33:51.461][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 21:33:51.462][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 21:33:51.463][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 21:33:51.466][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-23 21:33:51.469][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-23 21:33:51.471][biodb::testThat]
biodb.INFO [2025-10-23 21:33:51.472][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-10-23 21:33:51.472][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:51.473][biodb::testThat]
sched.DEBUG[2025-10-23 21:33:51.476][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-23 21:33:51.478][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:51.484][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-23 21:33:51.485][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 21:33:51.488][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 [2025-10-23 21:33:51.500][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:51.502][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-23 21:33:51.503][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:51.505][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:51.506][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.511][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.512][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.513][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.514][FUN] Functions in observer 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[2025-10-23 21:33:51.515][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 [2025-10-23 21:33:51.518][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:51.520][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-23 21:33:51.521][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:51.522][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:51.523][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.528][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.529][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.530][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.531][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.547][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:51.548][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.553][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.554][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.555][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 21:33:51.560][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 [2025-10-23 21:33:51.563][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:51.565][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-23 21:33:51.565][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:51.567][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:51.568][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.573][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.576][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".
sched.DEBUG[2025-10-23 21:33:51.577][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 [2025-10-23 21:33:51.580][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:51.582][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-23 21:33:51.583][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:51.584][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:51.585][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.586][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.594][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.596][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:51.597][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.599][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.603][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.606][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.607][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".
sched.DEBUG[2025-10-23 21:33:51.612][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 [2025-10-23 21:33:51.615][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:51.617][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-10-23 21:33:51.618][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:51.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:51.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.626][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.627][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.629][FUN] Functions in observer 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[2025-10-23 21:33:51.631][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 [2025-10-23 21:33:51.634][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:51.636][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-10-23 21:33:51.637][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:51.639][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:51.640][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.646][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.647][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.648][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.649][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".
sched.DEBUG[2025-10-23 21:33:51.651][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 [2025-10-23 21:33:51.654][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:51.656][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-10-23 21:33:51.657][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:51.659][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:51.660][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.661][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.666][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.668][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-23 21:33:51.676][biodb::testThat]
biodb.INFO [2025-10-23 21:33:51.677][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-10-23 21:33:51.678][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:51.679][biodb::testThat]
sched.DEBUG[2025-10-23 21:33:51.683][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 [2025-10-23 21:33:51.686][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:51.692][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-10-23 21:33:51.693][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:51.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:51.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.701][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.702][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.703][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-10-23 21:33:51.707][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 [2025-10-23 21:33:51.709][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:51.711][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-10-23 21:33:51.712][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:51.714][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:51.715][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-23 21:33:51.727][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-23 21:33:51.728][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-23 21:33:51.729][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-23 21:33:51.730][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:51.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:51.732][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.734][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-23 21:33:51.738][biodb::testContext]
biodb.INFO [2025-10-23 21:33:51.739][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 21:33:51.740][biodb::testContext] Test context - Test web services
biodb.INFO [2025-10-23 21:33:51.741][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 21:33:51.742][biodb::testContext]
biodb.INFO [2025-10-23 21:33:51.744][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-23 21:33:51.745][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-23 21:33:51.749][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 21:33:51.750][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-23 21:33:51.751][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-23 21:33:51.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.754][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.754][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-23 21:33:51.755][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-23 21:33:51.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.759][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-23 21:33:51.760][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-23 21:33:51.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.763][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-23 21:33:51.764][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-23 21:33:51.765][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-23 21:33:51.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.769][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-23 21:33:51.770][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-23 21:33:51.771][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-23 21:33:51.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.774][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-23 21:33:51.775][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-23 21:33:51.776][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.778][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[2025-10-23 21:33:51.779][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-23 21:33:51.780][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-23 21:33:51.781][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-23 21:33:51.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.783][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.784][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-23 21:33:51.785][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-23 21:33:51.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.788][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-23 21:33:51.789][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-23 21:33:51.790][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-23 21:33:51.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.794][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-23 21:33:51.795][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-23 21:33:51.796][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-23 21:33:51.796][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-23 21:33:51.797][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-23 21:33:51.798][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-23 21:33:51.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.802][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-23 21:33:51.803][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-23 21:33:51.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.806][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-23 21:33:51.807][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-23 21:33:51.808][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.810][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.DEBUG[2025-10-23 21:33:51.811][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-23 21:33:51.812][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-23 21:33:51.813][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.815][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-23 21:33:51.816][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-23 21:33:51.817][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-23 21:33:51.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.820][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.820][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-23 21:33:51.821][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-23 21:33:51.826][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-23 21:33:51.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.827][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.829][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-23 21:33:51.830][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-23 21:33:51.831][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-23 21:33:51.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.834][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.835][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-23 21:33:51.836][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:51.837][self$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[2025-10-23 21:33:51.838][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.839][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 21:33:51.840][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.841][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 21:33:51.842][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:51.843][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 21:33:51.844][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 21:33:51.845][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 21:33:51.846][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.847][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-23 21:33:51.848][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 21:33:51.849][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:51.850][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.851][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 21:33:51.851][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 21:33:51.851][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 21:33:51.851][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 21:33:51.851][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 21:33:51.852][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 21:33:51.852][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:51.853][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:51.854][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 21:33:51.855][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:51.856][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:51.857][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 21:33:51.858][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:51.859][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 21:33:51.860][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 21:33:51.861][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:51.861][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:51.863][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-23 21:33:51.864][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:51.865][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 21:33:51.866][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.867][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 21:33:51.868][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.869][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 21:33:51.870][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:51.871][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 21:33:51.872][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 21:33:51.873][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 21:33:51.874][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.875][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-23 21:33:51.876][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 21:33:51.877][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:51.878][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.878][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 21:33:51.878][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 21:33:51.878][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 21:33:51.878][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 21:33:51.878][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 21:33:51.879][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 21:33:51.880][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:51.881][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:51.882][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 21:33:51.883][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:51.884][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:51.885][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 21:33:51.886][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:51.887][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 21:33:51.887][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 21:33:51.888][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:51.889][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:51.890][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-23 21:33:51.892][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.893][self$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[2025-10-23 21:33:51.894][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.895][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 21:33:51.896][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.897][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 21:33:51.898][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:51.899][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 21:33:51.900][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 21:33:51.901][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 21:33:51.902][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:51.903][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-23 21:33:51.903][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 21:33:51.904][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:51.905][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.906][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:51.907][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 21:33:51.908][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:51.909][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:51.910][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 21:33:51.911][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:51.912][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:51.913][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 21:33:51.914][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:51.915][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 21:33:51.915][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 21:33:51.916][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:51.917][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:51.918][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-23 21:33:51.920][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.921][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 21:33:51.922][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.923][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 21:33:51.924][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.925][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 21:33:51.926][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:51.927][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 21:33:51.928][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 21:33:51.929][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 21:33:51.930][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:51.931][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-23 21:33:51.932][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 21:33:51.933][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:51.933][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:51.934][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:51.935][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 21:33:51.936][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:51.937][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:51.938][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 21:33:51.939][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:51.940][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:51.941][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 21:33:51.942][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:51.943][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 21:33:51.944][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 21:33:51.944][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:51.945][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:51.947][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 21:33:51.948][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.949][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.DEBUG[2025-10-23 21:33:51.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.955][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.956][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.960][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.964][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.965][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.969][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.977][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.989][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.DEBUG[2025-10-23 21:33:51.990][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:51.994][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:51.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:51.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:51.997][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[2025-10-23 21:33:51.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:51.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.000][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.006][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.007][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.019][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.025][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.027][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[2025-10-23 21:33:52.028][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-23 21:33:52.029][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-23 21:33:52.030][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-23 21:33:52.032][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-23 21:33:52.033][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 21:33:52.034][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-23 21:33:52.036][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-23 21:33:52.037][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-23 21:33:52.038][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-23 21:33:52.039][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-23 21:33:52.041][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 21:33:52.042][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-23 21:33:52.043][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-23 21:33:52.045][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-23 21:33:52.046][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-23 21:33:52.047][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-23 21:33:52.048][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-23 21:33:52.050][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-23 21:33:52.051][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 21:33:52.052][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-23 21:33:52.054][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-23 21:33:52.055][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-23 21:33:52.056][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-23 21:33:52.057][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-23 21:33:52.059][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-23 21:33:52.060][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-23 21:33:52.061][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-23 21:33:52.062][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-23 21:33:52.064][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-23 21:33:52.065][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-23 21:33:52.066][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-23 21:33:52.068][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-23 21:33:52.069][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-23 21:33:52.070][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-23 21:33:52.071][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-23 21:33:52.073][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-23 21:33:52.074][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-23 21:33:52.075][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-23 21:33:52.077][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-23 21:33:52.078][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-23 21:33:52.079][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-23 21:33:52.080][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-23 21:33:52.082][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-23 21:33:52.083][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-23 21:33:52.084][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-23 21:33:52.086][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-23 21:33:52.087][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-23 21:33:52.088][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-23 21:33:52.090][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-23 21:33:52.091][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-23 21:33:52.092][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-23 21:33:52.093][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-23 21:33:52.095][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-23 21:33:52.096][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-23 21:33:52.097][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-23 21:33:52.098][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-23 21:33:52.100][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-23 21:33:52.101][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-23 21:33:52.102][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-23 21:33:52.104][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-23 21:33:52.105][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-23 21:33:52.106][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-23 21:33:52.108][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-23 21:33:52.109][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-23 21:33:52.110][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-23 21:33:52.111][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-23 21:33:52.113][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 21:33:52.114][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 21:33:52.115][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-23 21:33:52.117][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-23 21:33:52.118][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-23 21:33:52.119][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-23 21:33:52.121][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-23 21:33:52.122][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-23 21:33:52.123][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-23 21:33:52.125][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-23 21:33:52.126][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-23 21:33:52.127][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-23 21:33:52.129][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-23 21:33:52.130][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-23 21:33:52.131][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-23 21:33:52.132][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-23 21:33:52.134][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-23 21:33:52.140][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-23 21:33:52.141][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-23 21:33:52.142][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 21:33:52.143][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.145][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.158][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.159][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.160][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.168][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.170][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.171][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.173][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.174][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.175][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.177][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.182][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.184][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.185][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.190][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.209][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.213][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.218][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.218][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.219][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.223][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[2025-10-23 21:33:52.224][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.225][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.227][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.229][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.230][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.233][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.235][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.236][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.242][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-23 21:33:52.243][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-23 21:33:52.245][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:52.246][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-23 21:33:52.247][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.248][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 21:33:52.249][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.250][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 21:33:52.251][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.257][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-23 21:33:52.258][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-23 21:33:52.259][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 21:33:52.260][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.261][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-23 21:33:52.261][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 21:33:52.262][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-23 21:33:52.262][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-23 21:33:52.262][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-23 21:33:52.262][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-23 21:33:52.262][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-23 21:33:52.262][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-23 21:33:52.262][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-23 21:33:52.262][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-23 21:33:52.262][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-23 21:33:52.262][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-23 21:33:52.262][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-23 21:33:52.263][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:52.264][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 21:33:52.264][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 21:33:52.264][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 21:33:52.265][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-23 21:33:52.266][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:52.267][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:52.268][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 21:33:52.269][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:52.270][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:52.270][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 21:33:52.271][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-23 21:33:52.271][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-23 21:33:52.272][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 21:33:52.273][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 21:33:52.274][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.275][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-23 21:33:52.275][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-23 21:33:52.276][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 21:33:52.278][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 21:33:52.279][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-23 21:33:52.281][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 21:33:52.282][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 21:33:52.283][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 21:33:52.286][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-23 21:33:52.289][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-23 21:33:52.291][biodb::testThat]
biodb.INFO [2025-10-23 21:33:52.292][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-10-23 21:33:52.293][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:52.293][biodb::testThat]
sched.DEBUG[2025-10-23 21:33:52.296][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-23 21:33:52.298][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:52.303][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-23 21:33:52.305][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 21:33:52.308][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-10-23 21:33:52.320][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:52.322][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-23 21:33:52.324][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-10-23 21:33:52.330][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-23 21:33:52.332][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-23 21:33:52.332][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-23 21:33:52.333][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.334][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.335][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.337][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-10-23 21:33:52.341][biodb::testContext]
biodb.INFO [2025-10-23 21:33:52.341][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 21:33:52.342][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-10-23 21:33:52.344][biodb::testContext] ********************************************************************************
biodb.INFO [2025-10-23 21:33:52.344][biodb::testContext]
biodb.INFO [2025-10-23 21:33:52.346][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.2.
biodb.DEBUG[2025-10-23 21:33:52.348][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-10-23 21:33:52.351][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 21:33:52.352][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-10-23 21:33:52.353][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-10-23 21:33:52.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.357][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-10-23 21:33:52.358][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-10-23 21:33:52.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.361][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-10-23 21:33:52.362][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-10-23 21:33:52.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.366][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-10-23 21:33:52.367][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-10-23 21:33:52.368][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-10-23 21:33:52.369][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.371][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-10-23 21:33:52.372][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-10-23 21:33:52.373][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-10-23 21:33:52.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.376][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-10-23 21:33:52.377][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-10-23 21:33:52.378][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.381][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-10-23 21:33:52.382][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-10-23 21:33:52.383][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-10-23 21:33:52.384][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.385][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[2025-10-23 21:33:52.386][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-10-23 21:33:52.387][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-10-23 21:33:52.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.391][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-10-23 21:33:52.392][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-10-23 21:33:52.393][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-10-23 21:33:52.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.394][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.395][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.396][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-10-23 21:33:52.397][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-10-23 21:33:52.398][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-10-23 21:33:52.399][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-10-23 21:33:52.400][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-10-23 21:33:52.401][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-10-23 21:33:52.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.404][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-10-23 21:33:52.405][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-10-23 21:33:52.406][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.409][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-10-23 21:33:52.410][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-10-23 21:33:52.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.412][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.413][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-10-23 21:33:52.414][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-10-23 21:33:52.415][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.418][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-10-23 21:33:52.419][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-10-23 21:33:52.420][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-10-23 21:33:52.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.423][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-10-23 21:33:52.424][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-10-23 21:33:52.428][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-10-23 21:33:52.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.432][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-10-23 21:33:52.432][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-10-23 21:33:52.434][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-10-23 21:33:52.434][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.437][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-10-23 21:33:52.439][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:52.440][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-10-23 21:33:52.441][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.442][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 21:33:52.443][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.444][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 21:33:52.445][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:52.446][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 21:33:52.447][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 21:33:52.448][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 21:33:52.449][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.449][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-10-23 21:33:52.450][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 21:33:52.451][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:52.452][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.453][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 21:33:52.453][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 21:33:52.453][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 21:33:52.453][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 21:33:52.453][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 21:33:52.454][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 21:33:52.455][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:52.456][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:52.457][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 21:33:52.458][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:52.459][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:52.460][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 21:33:52.460][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:52.461][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 21:33:52.462][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 21:33:52.463][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:52.464][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:52.465][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-10-23 21:33:52.467][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:52.468][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 21:33:52.469][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.470][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 21:33:52.471][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.472][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 21:33:52.473][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:52.474][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 21:33:52.474][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 21:33:52.475][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 21:33:52.476][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.477][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-10-23 21:33:52.478][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 21:33:52.479][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:52.480][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.481][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 21:33:52.481][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 21:33:52.481][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 21:33:52.481][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-10-23 21:33:52.481][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-10-23 21:33:52.482][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 21:33:52.483][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:52.484][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:52.485][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 21:33:52.486][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:52.487][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:52.487][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 21:33:52.488][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:52.489][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 21:33:52.490][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 21:33:52.491][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:52.492][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:52.493][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-10-23 21:33:52.495][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.496][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-10-23 21:33:52.497][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.498][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 21:33:52.499][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.500][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 21:33:52.501][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:52.502][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 21:33:52.503][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-10-23 21:33:52.504][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 21:33:52.505][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:52.506][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-10-23 21:33:52.506][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 21:33:52.507][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:52.508][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.509][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:52.510][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 21:33:52.511][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:52.512][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:52.513][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 21:33:52.514][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:52.515][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:52.516][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 21:33:52.517][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:52.518][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 21:33:52.518][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 21:33:52.519][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:52.520][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:52.521][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-10-23 21:33:52.523][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.524][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-10-23 21:33:52.525][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.526][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 21:33:52.527][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.528][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 21:33:52.529][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:52.530][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-10-23 21:33:52.531][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-10-23 21:33:52.532][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 21:33:52.533][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:52.534][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-10-23 21:33:52.535][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 21:33:52.536][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:52.537][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.538][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:52.539][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-10-23 21:33:52.545][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:52.546][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:52.547][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 21:33:52.547][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:52.548][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:52.549][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 21:33:52.550][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:52.551][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 21:33:52.552][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 21:33:52.553][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:52.554][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-10-23 21:33:52.555][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 21:33:52.556][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.557][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.DEBUG[2025-10-23 21:33:52.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.559][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.561][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.562][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.565][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.DEBUG[2025-10-23 21:33:52.566][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.567][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.570][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.571][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.574][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.574][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.576][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.577][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.578][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.581][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.587][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.590][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.592][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.599][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.606][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.610][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.613][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.614][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.616][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[2025-10-23 21:33:52.617][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.618][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.621][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.624][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.626][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-10-23 21:33:52.627][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-10-23 21:33:52.629][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-10-23 21:33:52.630][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-10-23 21:33:52.631][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 21:33:52.633][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-10-23 21:33:52.634][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-10-23 21:33:52.636][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-10-23 21:33:52.637][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-10-23 21:33:52.638][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-10-23 21:33:52.639][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 21:33:52.641][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-10-23 21:33:52.642][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-10-23 21:33:52.643][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-10-23 21:33:52.645][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-10-23 21:33:52.646][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-10-23 21:33:52.647][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-10-23 21:33:52.649][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-10-23 21:33:52.650][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 21:33:52.651][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-10-23 21:33:52.652][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-10-23 21:33:52.654][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-10-23 21:33:52.655][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-10-23 21:33:52.656][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-10-23 21:33:52.658][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-10-23 21:33:52.659][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-10-23 21:33:52.660][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-10-23 21:33:52.661][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-10-23 21:33:52.663][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-10-23 21:33:52.664][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-10-23 21:33:52.665][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-10-23 21:33:52.667][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-10-23 21:33:52.668][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-10-23 21:33:52.669][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-10-23 21:33:52.670][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-10-23 21:33:52.672][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-10-23 21:33:52.673][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-10-23 21:33:52.674][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-10-23 21:33:52.676][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-10-23 21:33:52.677][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-10-23 21:33:52.678][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-10-23 21:33:52.679][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-10-23 21:33:52.681][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-10-23 21:33:52.682][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-10-23 21:33:52.683][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-10-23 21:33:52.685][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-10-23 21:33:52.686][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-10-23 21:33:52.687][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-10-23 21:33:52.689][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-10-23 21:33:52.690][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-10-23 21:33:52.691][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-10-23 21:33:52.693][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-10-23 21:33:52.694][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-10-23 21:33:52.695][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-10-23 21:33:52.697][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-10-23 21:33:52.698][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-10-23 21:33:52.699][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-10-23 21:33:52.701][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-10-23 21:33:52.702][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-10-23 21:33:52.703][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-10-23 21:33:52.704][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-10-23 21:33:52.706][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-10-23 21:33:52.707][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-10-23 21:33:52.708][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-10-23 21:33:52.710][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-10-23 21:33:52.711][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-10-23 21:33:52.712][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 21:33:52.714][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 21:33:52.715][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-10-23 21:33:52.716][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-10-23 21:33:52.717][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-10-23 21:33:52.719][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-10-23 21:33:52.720][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-10-23 21:33:52.721][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-10-23 21:33:52.723][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-10-23 21:33:52.724][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-10-23 21:33:52.725][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-10-23 21:33:52.727][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-10-23 21:33:52.728][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-10-23 21:33:52.729][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-10-23 21:33:52.731][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-10-23 21:33:52.732][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-10-23 21:33:52.733][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-10-23 21:33:52.739][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-10-23 21:33:52.740][initialize] This is biodb version 1.17.2.
biodb.DEBUG[2025-10-23 21:33:52.741][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-10-23 21:33:52.742][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.744][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.749][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.753][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.757][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[2025-10-23 21:33:52.758][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.763][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[2025-10-23 21:33:52.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.775][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.781][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[2025-10-23 21:33:52.781][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.783][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.786][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[2025-10-23 21:33:52.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.792][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[2025-10-23 21:33:52.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.801][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.803][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.804][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[2025-10-23 21:33:52.805][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.807][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.815][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.816][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.818][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.819][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.821][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.822][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.822][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.823][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.827][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-10-23 21:33:52.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.838][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.DEBUG[2025-10-23 21:33:52.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-10-23 21:33:52.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.844][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[2025-10-23 21:33:52.846][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-10-23 21:33:52.847][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-10-23 21:33:52.849][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:52.850][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-10-23 21:33:52.851][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.852][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-10-23 21:33:52.853][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.854][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-10-23 21:33:52.855][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.856][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-10-23 21:33:52.857][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-10-23 21:33:52.858][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-10-23 21:33:52.859][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.860][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-10-23 21:33:52.860][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-10-23 21:33:52.861][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-10-23 21:33:52.861][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-10-23 21:33:52.861][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-10-23 21:33:52.861][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-10-23 21:33:52.861][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-10-23 21:33:52.861][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-10-23 21:33:52.861][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-10-23 21:33:52.861][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-10-23 21:33:52.861][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-10-23 21:33:52.861][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-10-23 21:33:52.861][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-10-23 21:33:52.862][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-10-23 21:33:52.863][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-10-23 21:33:52.863][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-10-23 21:33:52.863][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-10-23 21:33:52.864][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-10-23 21:33:52.865][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:52.866][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:52.867][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-10-23 21:33:52.868][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-10-23 21:33:52.869][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-10-23 21:33:52.870][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-10-23 21:33:52.871][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-10-23 21:33:52.871][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-10-23 21:33:52.871][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-10-23 21:33:52.872][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-10-23 21:33:52.873][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-10-23 21:33:52.874][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-10-23 21:33:52.874][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-10-23 21:33:52.875][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-10-23 21:33:52.877][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-10-23 21:33:52.879][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-10-23 21:33:52.880][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-10-23 21:33:52.881][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-10-23 21:33:52.883][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-10-23 21:33:52.886][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-10-23 21:33:52.889][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-10-23 21:33:52.890][biodb::testThat]
biodb.INFO [2025-10-23 21:33:52.891][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-10-23 21:33:52.892][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-10-23 21:33:52.893][biodb::testThat]
sched.DEBUG[2025-10-23 21:33:52.895][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-10-23 21:33:52.897][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:52.903][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-10-23 21:33:52.904][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-10-23 21:33:52.907][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 [2025-10-23 21:33:52.920][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-10-23 21:33:52.922][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-10-23 21:33:52.923][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-10-23 21:33:52.927][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-10-23 21:33:52.930][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-10-23 21:33:52.931][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-10-23 21:33:52.940][FUN] Found encoding UTF-8 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-10-23 21:33:52.942][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-10-23 21:33:52.944][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-10-23 21:33:52.945][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-10-23 21:33:52.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-10-23 21:33:52.947][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:52.948][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:52.952][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:52.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:52.954][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:52.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-10-23 21:33:52.959][ef$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:52.960][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:52.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:52.961][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:52.963][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:52.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:52.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:52.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:52.967][ef$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:52.968][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:52.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:52.970][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:52.971][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-10-23 21:33:52.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-10-23 21:33:52.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:52.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:52.975][ef$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:52.976][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:52.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:52.978][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:52.980][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-10-23 21:33:52.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-10-23 21:33:52.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:52.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:52.984][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-10-23 21:33:52.985][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-10-23 21:33:52.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:52.987][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:52.988][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-10-23 21:33:52.989][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-10-23 21:33:52.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:52.991][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:52.992][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:52.993][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:52.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:52.995][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:52.997][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:52.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-10-23 21:33:52.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:52.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:53.001][ef$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:53.002][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:53.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:53.003][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:53.005][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-10-23 21:33:53.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-10-23 21:33:53.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:53.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:53.009][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:53.010][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:53.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:53.011][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:53.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:53.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-10-23 21:33:53.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:53.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:53.017][ef$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:53.018][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:53.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:53.020][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:53.021][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-10-23 21:33:53.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-10-23 21:33:53.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:53.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:53.025][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:53.026][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:53.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:53.028][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:53.030][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-10-23 21:33:53.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-10-23 21:33:53.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:53.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:53.033][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:53.034][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:53.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:53.036][ef$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:53.038][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-10-23 21:33:53.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-10-23 21:33:53.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:53.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:53.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:53.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:53.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:53.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:53.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:53.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:53.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:53.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:53.049][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:53.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:53.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:53.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:53.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-10-23 21:33:53.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-10-23 21:33:53.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:53.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:53.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:53.058][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:53.059][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:53.060][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:53.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:53.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:53.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:53.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:53.065][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:53.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:53.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:53.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:53.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:53.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:53.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:53.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:53.072][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:53.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:53.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:53.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-10-23 21:33:53.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-10-23 21:33:53.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-10-23 21:33:53.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-10-23 21:33:53.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-10-23 21:33:53.080][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-10-23 21:33:53.084][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-10-23 21:33:53.085][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-10-23 21:33:53.086][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-10-23 21:33:53.087][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-10-23 21:33:53.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-10-23 21:33:53.088][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-10-23 21:33:53.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-10-23 21:33:53.090][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-10-23 21:33:53.091][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".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
 29.676   1.059  38.430

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.8570.0671.140
ChebiEntry0.2920.0090.605