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This page was generated on 2025-09-04 12:03 -0400 (Thu, 04 Sep 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4822
lconwaymacOS 12.7.1 Montereyx86_644.5.1 (2025-06-13) -- "Great Square Root" 4617
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4564
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4541
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 206/2321HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-09-03 13:45 -0400 (Wed, 03 Sep 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: b5e26aa
git_last_commit_date: 2025-06-24 10:11:00 -0400 (Tue, 24 Jun 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

CHECK results for biodbChebi on nebbiolo2

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

raw results


Summary

Package: biodbChebi
Version: 1.15.1
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings biodbChebi_1.15.1.tar.gz
StartedAt: 2025-09-03 21:19:08 -0400 (Wed, 03 Sep 2025)
EndedAt: 2025-09-03 21:20:53 -0400 (Wed, 03 Sep 2025)
EllapsedTime: 105.2 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

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


* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck’
* using R version 4.5.1 (2025-06-13)
* 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 (2025-06-13) -- "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 [2025-09-03 21:20:17.297][biodb::testContext]
biodb.INFO [2025-09-03 21:20:17.300][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 21:20:17.302][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-09-03 21:20:17.303][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 21:20:17.304][biodb::testContext]
biodb.INFO [2025-09-03 21:20:17.313][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-03 21:20:17.316][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-09-03 21:20:17.326][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 21:20:17.328][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-03 21:20:17.330][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-03 21:20:17.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.338][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.343][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-03 21:20:17.402][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-03 21:20:17.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.415][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.417][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-03 21:20:17.421][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-03 21:20:17.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.427][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-03 21:20:17.428][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-03 21:20:17.430][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-03 21:20:17.431][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.435][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-03 21:20:17.436][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-03 21:20:17.438][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-03 21:20:17.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.443][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-03 21:20:17.445][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-03 21:20:17.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.463][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-03 21:20:17.464][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-03 21:20:17.465][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-03 21:20:17.466][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.470][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-03 21:20:17.471][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-03 21:20:17.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.475][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[2025-09-03 21:20:17.476][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-03 21:20:17.478][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-03 21:20:17.479][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-03 21:20:17.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.482][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.483][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-03 21:20:17.485][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-03 21:20:17.486][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-03 21:20:17.487][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-03 21:20:17.488][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-03 21:20:17.490][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-03 21:20:17.491][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.495][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-03 21:20:17.496][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-03 21:20:17.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.499][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.500][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-03 21:20:17.502][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-03 21:20:17.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.505][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.506][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-03 21:20:17.508][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-03 21:20:17.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.512][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-03 21:20:17.513][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-03 21:20:17.515][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-03 21:20:17.516][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.520][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-03 21:20:17.521][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-03 21:20:17.532][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-03 21:20:17.534][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.535][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.537][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.538][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-03 21:20:17.540][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-03 21:20:17.542][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-03 21:20:17.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.546][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.551][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-03 21:20:17.608][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:17.635][self$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[2025-09-03 21:20:17.637][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:17.639][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 21:20:17.640][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:17.642][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 21:20:17.643][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:17.645][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 21:20:17.646][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 21:20:17.648][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 21:20:17.649][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:17.651][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-03 21:20:17.652][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 21:20:17.654][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:17.655][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:17.656][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 21:20:17.656][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 21:20:17.656][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 21:20:17.656][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 21:20:17.656][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 21:20:17.658][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 21:20:17.659][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:17.661][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:17.662][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 21:20:17.664][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:17.665][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:17.666][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 21:20:17.668][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:17.669][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 21:20:17.670][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 21:20:17.672][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:17.673][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:17.675][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-03 21:20:17.678][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:17.679][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 21:20:17.681][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:17.682][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 21:20:17.684][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:17.686][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 21:20:17.687][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:17.689][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 21:20:17.690][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 21:20:17.692][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 21:20:17.693][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:17.695][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-03 21:20:17.696][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 21:20:17.697][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:17.699][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:17.700][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 21:20:17.700][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 21:20:17.700][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 21:20:17.700][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 21:20:17.700][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 21:20:17.702][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 21:20:17.703][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:17.705][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:17.706][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 21:20:17.707][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:17.709][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:17.710][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 21:20:17.711][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:17.713][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 21:20:17.714][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 21:20:17.715][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:17.717][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:17.719][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-03 21:20:17.721][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:17.723][self$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[2025-09-03 21:20:17.724][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:17.726][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 21:20:17.727][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:17.729][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 21:20:17.730][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:17.731][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 21:20:17.733][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 21:20:17.734][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 21:20:17.736][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:17.737][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-03 21:20:17.739][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 21:20:17.740][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:17.742][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:17.743][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:17.745][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 21:20:17.746][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:17.748][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:17.749][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 21:20:17.750][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:17.752][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:17.753][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 21:20:17.754][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:17.756][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 21:20:17.757][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 21:20:17.758][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:17.760][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:17.762][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-03 21:20:17.765][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:17.767][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 21:20:17.768][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:17.770][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 21:20:17.772][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:17.773][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 21:20:17.775][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:17.776][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 21:20:17.777][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 21:20:17.779][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 21:20:17.780][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:17.782][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-03 21:20:17.783][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 21:20:17.785][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:17.793][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:17.795][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:17.796][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 21:20:17.798][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:17.799][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:17.800][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 21:20:17.802][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:17.803][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:17.804][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 21:20:17.806][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:17.807][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 21:20:17.808][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 21:20:17.810][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:17.811][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:17.817][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 21:20:17.819][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.820][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[2025-09-03 21:20:17.821][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:17.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:17.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.827][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[2025-09-03 21:20:17.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:17.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:17.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.833][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.835][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:17.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:17.839][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.840][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.DEBUG[2025-09-03 21:20:17.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:17.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:17.846][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.848][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:17.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:17.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.853][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:17.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:17.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.860][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.861][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:17.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:17.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.868][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.869][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:17.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:17.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.873][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.DEBUG[2025-09-03 21:20:17.875][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:17.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:17.879][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.880][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.881][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:17.884][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:17.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.888][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:17.891][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:17.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.894][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.895][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.896][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:17.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:17.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:17.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:17.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.909][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:17.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:17.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.914][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.915][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.917][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:17.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:17.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:17.923][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:17.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:17.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:17.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:17.928][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[2025-09-03 21:20:17.930][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-03 21:20:17.937][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-03 21:20:17.940][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-03 21:20:17.942][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-03 21:20:17.944][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 21:20:17.946][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-03 21:20:17.948][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-03 21:20:17.951][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-03 21:20:17.953][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-03 21:20:17.955][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-03 21:20:17.957][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 21:20:17.959][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-03 21:20:17.961][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-03 21:20:17.963][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-03 21:20:17.965][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-03 21:20:17.967][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-03 21:20:17.969][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-03 21:20:17.971][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-03 21:20:17.973][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 21:20:17.975][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-03 21:20:17.977][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-03 21:20:17.979][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-03 21:20:17.981][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-03 21:20:17.983][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-03 21:20:17.985][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-03 21:20:17.987][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-03 21:20:17.990][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-03 21:20:17.992][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-03 21:20:17.994][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-03 21:20:17.996][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-03 21:20:17.998][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-03 21:20:18.000][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-03 21:20:18.002][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-03 21:20:18.004][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-03 21:20:18.006][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-03 21:20:18.009][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-03 21:20:18.011][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-03 21:20:18.013][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-03 21:20:18.015][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-03 21:20:18.017][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-03 21:20:18.019][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-03 21:20:18.021][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-03 21:20:18.023][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-03 21:20:18.025][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-03 21:20:18.028][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-03 21:20:18.030][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-03 21:20:18.032][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-03 21:20:18.034][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-03 21:20:18.036][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-03 21:20:18.038][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-03 21:20:18.040][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-03 21:20:18.042][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-03 21:20:18.044][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-03 21:20:18.046][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-03 21:20:18.048][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-03 21:20:18.050][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-03 21:20:18.052][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-03 21:20:18.054][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-03 21:20:18.056][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-03 21:20:18.058][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-03 21:20:18.060][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-03 21:20:18.062][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-03 21:20:18.064][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-03 21:20:18.066][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-03 21:20:18.068][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-03 21:20:18.070][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-03 21:20:18.072][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 21:20:18.074][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 21:20:18.076][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-03 21:20:18.078][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-03 21:20:18.081][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-03 21:20:18.083][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-03 21:20:18.085][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-03 21:20:18.087][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-03 21:20:18.089][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-03 21:20:18.091][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-03 21:20:18.093][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-03 21:20:18.095][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-03 21:20:18.097][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-03 21:20:18.099][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-03 21:20:18.101][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-03 21:20:18.103][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-03 21:20:18.105][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-03 21:20:18.122][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-03 21:20:18.124][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-03 21:20:18.129][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 21:20:18.130][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:18.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:18.133][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:18.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:18.142][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:18.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:18.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:18.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:18.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:18.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:18.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:18.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:18.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:18.154][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:18.155][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:18.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:18.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:18.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:18.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:18.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:18.167][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:18.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:18.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:18.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:18.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:18.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:18.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:18.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:18.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:18.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:18.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:18.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:18.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:18.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:18.195][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:18.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:18.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:18.198][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:18.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:18.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:18.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:18.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:18.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:18.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:18.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:18.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:18.215][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:18.216][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:18.217][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:18.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:18.220][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:18.221][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:18.223][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[2025-09-03 21:20:18.224][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:18.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:18.227][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:18.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:18.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:18.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:18.232][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[2025-09-03 21:20:18.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:18.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:18.236][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:18.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:18.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:18.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:18.241][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[2025-09-03 21:20:18.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:18.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:18.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:18.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:18.248][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:18.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:18.250][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:18.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:18.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:18.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:18.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:18.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:18.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:18.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:18.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:18.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:18.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:18.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:18.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:18.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:18.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:18.270][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:18.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:18.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:18.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:18.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:18.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:18.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:18.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:18.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:18.290][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:18.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:18.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:18.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:18.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:18.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:18.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:18.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:18.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:18.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:18.313][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:18.317][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[2025-09-03 21:20:18.318][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:18.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:18.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:18.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:18.323][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:18.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:18.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:18.331][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-03 21:20:18.359][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-03 21:20:18.362][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:18.367][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-03 21:20:18.369][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:18.370][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 21:20:18.375][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:18.376][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 21:20:18.377][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:18.382][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-03 21:20:18.383][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-03 21:20:18.384][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 21:20:18.388][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:18.390][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-03 21:20:18.395][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 21:20:18.397][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-03 21:20:18.397][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-03 21:20:18.397][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-03 21:20:18.397][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-03 21:20:18.397][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-03 21:20:18.397][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-03 21:20:18.397][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-03 21:20:18.397][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-03 21:20:18.397][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-03 21:20:18.397][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-03 21:20:18.397][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-03 21:20:18.402][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:18.403][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 21:20:18.403][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 21:20:18.403][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 21:20:18.405][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-03 21:20:18.413][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:18.415][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:18.416][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 21:20:18.418][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:18.426][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:18.428][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 21:20:18.429][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-03 21:20:18.429][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-03 21:20:18.439][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 21:20:18.440][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 21:20:18.445][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:18.446][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-03 21:20:18.446][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-03 21:20:18.466][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 21:20:18.470][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 21:20:18.473][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-03 21:20:18.479][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 21:20:18.485][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 21:20:18.487][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 21:20:18.545][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-03 21:20:18.593][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-03 21:20:18.618][biodb::testThat]
biodb.INFO [2025-09-03 21:20:18.619][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-09-03 21:20:18.621][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:18.622][biodb::testThat]
biodb.TRACE[2025-09-03 21:20:18.654][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-09-03 21:20:18.657][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:18.669][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:18.689][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:18.694][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:18.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:18.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:18.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:18.738][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:18.739][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:18.764][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:18.766][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:18.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.769][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.771][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:18.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:18.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.796][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:18.798][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:18.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.801][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.843][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:18.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:18.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.850][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:18.851][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:18.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.854][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.856][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:18.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:18.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.862][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:18.863][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:18.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.866][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.868][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:18.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:18.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.874][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:18.875][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:18.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.878][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.880][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:18.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:18.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.885][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:18.887][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:18.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.890][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.891][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:18.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:18.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.897][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:18.898][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:18.900][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.901][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.903][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:18.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:18.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.909][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:18.910][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:18.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.913][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:18.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:18.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.921][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:18.922][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:18.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.925][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.927][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:18.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:18.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.933][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:18.935][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:18.936][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.937][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.939][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:18.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:18.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.945][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:18.947][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:18.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.949][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.951][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:18.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:18.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.957][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:18.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:18.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:18.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:18.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:18.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:18.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.975][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:18.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:18.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:18.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:18.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:18.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:18.987][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:18.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:18.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:19.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:19.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:19.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:19.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:19.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:19.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:19.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:19.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:19.083][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-09-03 21:20:19.086][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:19.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:19.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.092][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:19.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:19.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.132][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:19.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:19.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.137][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:19.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:19.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:19.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:19.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.146][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:19.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:19.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.150][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-03 21:20:19.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-03 21:20:19.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.155][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-03 21:20:19.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-03 21:20:19.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.159][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-03 21:20:19.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-03 21:20:19.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.164][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-03 21:20:19.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-03 21:20:19.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:19.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:19.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.190][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:19.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:19.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:19.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:19.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:19.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:19.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:19.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:19.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:19.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:19.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.225][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:19.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:19.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.230][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:19.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:19.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:19.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:19.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.239][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:19.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:19.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:19.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:19.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:19.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:19.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.268][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:19.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:19.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:19.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:19.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.285][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:19.286][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:19.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.291][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:19.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:19.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.310][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:19.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:19.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:19.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:19.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.320][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:19.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:19.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.324][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:19.326][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:19.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.328][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.329][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:19.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:19.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.342][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:19.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:19.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.347][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:19.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:19.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.351][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:19.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:19.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.356][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:19.357][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:19.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.359][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.360][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:19.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:19.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.373][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:19.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:19.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.378][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:19.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:19.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.383][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:19.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:19.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.395][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:19.396][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:19.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.404][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.405][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:19.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:19.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:19.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:19.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.426][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:19.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:19.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:19.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:19.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.436][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:19.437][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:19.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.439][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.440][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:19.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:19.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.453][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:19.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:19.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.458][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:19.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:19.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.463][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:19.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:19.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.467][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:19.469][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:19.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.477][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:19.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:19.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.491][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:19.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:19.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.495][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:19.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:19.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.500][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:19.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:19.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.504][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:19.505][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:19.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.508][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.509][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:19.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:19.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.522][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-03 21:20:19.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:19.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.526][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-03 21:20:19.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:19.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.531][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-03 21:20:19.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:19.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.535][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-03 21:20:19.537][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:19.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.539][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.540][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-03 21:20:19.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:19.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.553][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:19.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:19.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.557][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:19.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:19.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.562][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:19.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:19.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.567][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:19.568][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:19.569][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.570][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.571][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:19.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:19.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.584][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:19.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:19.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.589][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:19.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:19.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.593][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:19.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:19.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.598][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:19.599][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:19.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.601][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.602][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:19.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:19.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.616][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:19.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:19.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.621][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:19.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:19.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.625][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:19.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:19.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.630][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:19.631][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:19.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.633][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.634][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:19.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:19.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.647][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:19.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:19.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.652][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:19.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:19.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.657][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:19.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:19.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.661][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:19.662][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:19.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.665][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.666][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:19.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:19.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.712][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:19.713][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:19.715][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.716][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.721][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:19.722][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:19.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.724][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.730][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:19.731][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:19.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.733][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.738][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:19.740][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:19.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.742][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.747][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:19.748][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:19.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.750][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.755][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:19.756][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:19.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.759][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.764][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:19.765][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:19.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.767][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.772][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:19.773][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:19.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.776][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.781][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-03 21:20:19.782][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:19.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.784][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.789][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:19.790][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:19.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.793][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.798][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:19.799][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:19.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.801][ef$get] fields variable is a list.
biodb.INFO [2025-09-03 21:20:19.809][biodb::testThat]
biodb.INFO [2025-09-03 21:20:19.810][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-09-03 21:20:19.811][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:19.812][biodb::testThat]
biodb.DEBUG[2025-09-03 21:20:19.829][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-09-03 21:20:19.833][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:19.837][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:19.845][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-09-03 21:20:19.846][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:19.875][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:19.877][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:19.879][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:19.880][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:19.881][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:19.887][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:19.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:19.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:19.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:19.893][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:19.894][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:19.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.896][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:19.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:19.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.928][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:19.930][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:19.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.932][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.934][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:19.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:19.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.938][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:19.940][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:19.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.942][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.943][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:19.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:19.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.948][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:19.949][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:19.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.951][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.952][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:19.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:19.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.957][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:19.958][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:19.959][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.960][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.962][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:19.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:19.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.966][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:19.968][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:19.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.970][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.971][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:19.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:19.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.976][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:19.977][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:19.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.979][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.981][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:19.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:19.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.985][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:19.987][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:19.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.989][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.990][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:19.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:19.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:19.995][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:19.996][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:19.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:19.998][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.000][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:20.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:20.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.004][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:20.006][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:20.007][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.008][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.009][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:20.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:20.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.014][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:20.015][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:20.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.017][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.019][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:20.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:20.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.023][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:20.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:20.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.028][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:20.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:20.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:20.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:20.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:20.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:20.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:20.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:20.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:20.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:20.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:20.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:20.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:20.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:20.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:20.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:20.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:20.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:20.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:20.068][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-09-03 21:20:20.070][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-09-03 21:20:20.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-09-03 21:20:20.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-09-03 21:20:20.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-09-03 21:20:20.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-09-03 21:20:20.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-09-03 21:20:20.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-03 21:20:20.091][biodb::testThat]
biodb.INFO [2025-09-03 21:20:20.092][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-09-03 21:20:20.093][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:20.094][biodb::testThat]
biodb.TRACE[2025-09-03 21:20:20.097][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:20.099][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:20.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.101][ef$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:20.102][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-09-03 21:20:20.138][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:20.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:20.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.143][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:20.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:20.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.147][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:20.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:20.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:20.154][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-09-03 21:20:20.161][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-03 21:20:20.185][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:20.193][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-03 21:20:20.194][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 21:20:20.217][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 [2025-09-03 21:20:20.254][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:20.264][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 21:20:20.266][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:20.272][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-09-03 21:20:20.293][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:20.295][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:20.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.298][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.299][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:20.301][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:20.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.304][ef$get] fields variable is a list.
biodb.INFO [2025-09-03 21:20:20.311][biodb::testThat]
biodb.INFO [2025-09-03 21:20:20.312][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-09-03 21:20:20.314][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:20.316][biodb::testThat]
biodb.TRACE[2025-09-03 21:20:20.357][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:20.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:20.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.370][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:20.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:20.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.376][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:20.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:20.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 21:20:20.471][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 [2025-09-03 21:20:20.475][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:20.481][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 21:20:20.482][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-09-03 21:20:20.505][biodb::testThat]
biodb.INFO [2025-09-03 21:20:20.507][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-09-03 21:20:20.508][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:20.510][biodb::testThat]
biodb.TRACE[2025-09-03 21:20:20.541][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:20.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:20.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.547][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:20.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:20.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.553][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:20.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:20.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.559][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:20.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:20.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.565][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:20.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:20.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:20.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:20.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.577][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-03 21:20:20.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-03 21:20:20.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.583][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-03 21:20:20.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-03 21:20:20.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.588][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-03 21:20:20.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-03 21:20:20.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.594][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-03 21:20:20.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-03 21:20:20.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.637][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:20.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:20.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.644][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:20.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:20.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.650][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:20.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:20.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.655][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:20.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:20.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.661][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:20.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:20.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:20.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:20.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.673][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-03 21:20:20.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-03 21:20:20.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.679][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-03 21:20:20.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-03 21:20:20.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.685][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-03 21:20:20.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-03 21:20:20.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:20.691][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-03 21:20:20.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-03 21:20:20.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:20.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-03 21:20:20.705][biodb::testThat]
biodb.INFO [2025-09-03 21:20:20.707][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-09-03 21:20:20.708][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:20.710][biodb::testThat]
biodb.INFO [2025-09-03 21:20:20.722][biodb::testThat]
biodb.INFO [2025-09-03 21:20:20.723][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-09-03 21:20:20.725][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:20.726][biodb::testThat]
biodb.INFO [2025-09-03 21:20:20.737][biodb::testThat]
biodb.INFO [2025-09-03 21:20:20.739][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-09-03 21:20:20.741][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:20.742][biodb::testThat]
biodb.DEBUG[2025-09-03 21:20:20.748][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-09-03 21:20:21.581][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-09-03 21:20:23.052][biodb::testThat]
biodb.INFO [2025-09-03 21:20:23.054][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-09-03 21:20:23.055][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:23.056][biodb::testThat]
biodb.TRACE[2025-09-03 21:20:23.064][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:23.065][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:23.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.067][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.068][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:23.070][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:23.071][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.073][ef$get] fields variable is a list.
biodb.INFO [2025-09-03 21:20:23.075][biodb::testThat]
biodb.INFO [2025-09-03 21:20:23.076][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-09-03 21:20:23.078][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:23.079][biodb::testThat]
biodb.TRACE[2025-09-03 21:20:23.095][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:23.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:23.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.102][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:23.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:23.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.108][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:23.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:23.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 21:20:23.280][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 [2025-09-03 21:20:23.284][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:23.289][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 21:20:23.291][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 21:20:23.429][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 [2025-09-03 21:20:23.433][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:23.438][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 21:20:23.440][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-09-03 21:20:23.460][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-03 21:20:23.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-03 21:20:23.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.472][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.490][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.495][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 21:20:23.511][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 [2025-09-03 21:20:23.515][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:23.518][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-03 21:20:23.520][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:23.524][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:23.525][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:23.526][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:23.533][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:23.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:23.536][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:23.537][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.DEBUG[2025-09-03 21:20:23.539][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-09-03 21:20:23.614][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:23.617][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:23.622][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-09-03 21:20:23.624][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:23.626][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:23.627][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:23.630][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:23.631][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:23.632][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:23.640][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:23.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:23.642][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:23.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:23.647][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:23.648][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:23.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.651][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:23.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:23.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.666][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:23.667][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:23.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.670][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.672][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:23.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:23.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.678][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:23.679][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:23.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.682][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.685][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:23.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:23.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.691][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:23.692][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:23.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.695][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.697][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:23.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:23.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.702][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:23.704][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:23.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.707][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.708][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:23.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:23.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.714][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:23.716][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:23.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.719][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.721][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:23.722][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.723][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.725][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.727][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:23.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.733][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:23.734][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:23.735][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.737][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:23.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:23.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.744][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:23.746][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:23.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.749][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.751][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:23.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:23.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.757][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:23.758][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:23.759][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.761][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.762][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:23.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:23.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.768][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:23.770][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:23.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.772][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.774][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:23.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:23.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:23.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:23.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.785][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:23.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:23.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:23.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:23.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.797][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:23.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:23.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:23.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:23.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.808][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:23.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:23.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:23.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:23.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:23.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:23.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:23.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:23.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:23.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:23.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.835][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:23.837][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-09-03 21:20:23.852][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.858][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.864][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 21:20:23.871][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 21:20:23.875][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:23.881][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-03 21:20:23.883][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:23.939][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:23.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:23.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:23.948][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:23.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:23.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:23.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:23.953][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.958][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:23.963][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:23.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:23.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:23.969][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:23.970][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:23.971][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:23.977][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:23.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:23.979][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:23.981][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:23.982][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-09-03 21:20:23.983][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:23.985][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:23.993][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-09-03 21:20:23.999][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:24.001][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:24.003][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:24.009][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:24.010][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:24.016][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:24.030][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:24.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:24.033][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:24.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:24.036][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.038][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.041][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.048][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:24.049][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:24.050][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.051][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.053][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:24.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:24.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.058][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:24.064][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:24.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.067][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.072][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:24.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:24.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.085][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:24.087][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:24.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.093][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.099][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:24.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:24.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.109][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:24.111][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:24.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.118][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.124][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:24.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:24.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.134][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:24.136][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:24.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.143][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.149][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:24.151][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.156][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.157][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:24.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.167][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:24.168][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:24.170][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.171][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.173][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:24.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:24.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.178][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:24.179][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:24.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.182][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.183][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:24.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:24.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.189][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:24.190][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:24.192][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.193][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.194][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:24.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:24.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.200][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:24.202][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:24.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.204][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.205][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:24.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:24.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:24.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:24.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:24.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:24.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.246][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:24.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:24.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.259][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.272][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.280][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.296][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:24.300][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-09-03 21:20:24.302][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.307][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 21:20:24.366][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 [2025-09-03 21:20:24.374][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:24.386][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 21:20:24.388][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:24.392][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:24.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:24.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:24.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:24.411][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:24.412][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:24.413][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.TRACE[2025-09-03 21:20:24.414][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.419][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.423][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:24.428][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:24.429][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:24.430][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:24.435][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:24.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:24.437][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:24.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:24.439][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-09-03 21:20:24.440][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:24.442][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:24.449][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-09-03 21:20:24.450][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:24.452][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:24.454][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:24.458][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:24.459][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:24.464][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:24.471][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:24.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:24.473][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:24.474][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[2025-09-03 21:20:24.477][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.478][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.480][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.487][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:24.488][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:24.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.490][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.491][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:24.493][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:24.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.495][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.496][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:24.497][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:24.499][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.500][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.501][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:24.502][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:24.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.504][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.506][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:24.507][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:24.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.515][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.517][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:24.518][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.520][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.521][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:24.523][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:24.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.525][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.526][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:24.527][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:24.528][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.529][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.531][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:24.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:24.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.535][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:24.537][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:24.538][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.539][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.540][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:24.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:24.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.545][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:24.546][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:24.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.548][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.549][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:24.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:24.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.554][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:24.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:24.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:24.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:24.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.573][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.578][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.583][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:24.597][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-09-03 21:20:24.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.603][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.612][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:24.622][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:24.623][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:24.624][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:24.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:24.631][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:24.632][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:24.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:24.634][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-09-03 21:20:24.635][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:24.637][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:24.645][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-09-03 21:20:24.649][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:24.650][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:24.654][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:24.656][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:24.657][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:24.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:24.671][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:24.673][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:24.674][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:24.675][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:24.677][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.679][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.681][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.682][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.694][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:24.696][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:24.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.703][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.708][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:24.709][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:24.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.715][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.717][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:24.723][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:24.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.726][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.728][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:24.729][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:24.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.732][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.734][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:24.735][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:24.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.738][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.740][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:24.741][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.750][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.752][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:24.753][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:24.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.756][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.758][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:24.759][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:24.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.762][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.764][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:24.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:24.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.770][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:24.772][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:24.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.774][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.776][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:24.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:24.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.782][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:24.783][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:24.785][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.786][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:24.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:24.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.794][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:24.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:24.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:24.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:24.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.823][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:24.846][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-09-03 21:20:24.848][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.854][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.860][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.871][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:24.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:24.878][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:24.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:24.886][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:24.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:24.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:24.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:24.891][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-09-03 21:20:24.893][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:24.895][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:24.907][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-09-03 21:20:24.909][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:24.911][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:24.916][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:24.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:24.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:24.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:24.941][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:24.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:24.944][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:24.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:24.949][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.950][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.953][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.955][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:24.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:24.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.961][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:24.962][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:24.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.965][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.967][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:24.969][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:24.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.971][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.974][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:24.975][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:24.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.978][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.980][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:24.981][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:24.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.984][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.986][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:24.987][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:24.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.990][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.992][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:24.994][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:24.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:24.996][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:24.998][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:25.000][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:25.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.002][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.011][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:25.012][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:25.013][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.015][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.017][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:25.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:25.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.023][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:25.025][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:25.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.028][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.029][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:25.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:25.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.035][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:25.036][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:25.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.039][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.040][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.070][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.076][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.088][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:25.100][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-09-03 21:20:25.102][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.108][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.114][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.120][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.126][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:25.132][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:25.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:25.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:25.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:25.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:25.145][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:25.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:25.148][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-09-03 21:20:25.150][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:25.152][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:25.166][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-09-03 21:20:25.168][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:25.170][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:25.172][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:25.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:25.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:25.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:25.185][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:25.186][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:25.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:25.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:25.193][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.194][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.197][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.206][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:25.207][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:25.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.210][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.212][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:25.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:25.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.218][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:25.220][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:25.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.223][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.225][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:25.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:25.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.231][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:25.233][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:25.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.236][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.238][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:25.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:25.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.244][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:25.245][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:25.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.248][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.250][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:25.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:25.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.264][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:25.265][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:25.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.268][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.270][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:25.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:25.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.276][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:25.278][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.279][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.281][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.282][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:25.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.289][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:25.290][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:25.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.293][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.295][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:25.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:25.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.301][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:25.303][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:25.304][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.305][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.308][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:25.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:25.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.314][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:25.316][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:25.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.318][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.320][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:25.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:25.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.326][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:25.328][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:25.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.331][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.333][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:25.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:25.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.342][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.352][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.362][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.380][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.394][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:25.399][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-09-03 21:20:25.400][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.404][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.409][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:25.414][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:25.415][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:25.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:25.421][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:25.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:25.423][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:25.424][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:25.425][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-09-03 21:20:25.427][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:25.428][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:25.441][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-09-03 21:20:25.442][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:25.447][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:25.449][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:25.451][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:25.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:25.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:25.464][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:25.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:25.466][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:25.468][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:25.471][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.472][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.474][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.480][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:25.481][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:25.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.483][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.485][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:25.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:25.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.490][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:25.491][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:25.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.493][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.501][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:25.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:25.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.505][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:25.506][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:25.507][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.508][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.510][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:25.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:25.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.514][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:25.515][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:25.517][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.518][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.519][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:25.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:25.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.523][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:25.525][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:25.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.527][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.528][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:25.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:25.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.533][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:25.534][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.540][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.542][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:25.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.550][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:25.556][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:25.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.558][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.563][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:25.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:25.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.572][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:25.576][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:25.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.578][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.583][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:25.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:25.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.591][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:25.597][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:25.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.599][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.604][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:25.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:25.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.609][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:25.610][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:25.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.612][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.614][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:25.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:25.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.618][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.645][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:25.668][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-09-03 21:20:25.669][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.678][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:25.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:25.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:25.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:25.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:25.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:25.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:25.694][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:25.695][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-09-03 21:20:25.696][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:25.698][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:25.709][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-09-03 21:20:25.710][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:25.712][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:25.713][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:25.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:25.716][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:25.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:25.722][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:25.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:25.724][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:25.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:25.734][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.735][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.738][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.743][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:25.745][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:25.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.747][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.748][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:25.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:25.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.753][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:25.754][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:25.755][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.756][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.758][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:25.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:25.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.761][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.762][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:25.763][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:25.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.766][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.767][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:25.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:25.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.772][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:25.773][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:25.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.775][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.776][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:25.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:25.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.781][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:25.782][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:25.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.785][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.786][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:25.787][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.789][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.791][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:25.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.795][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:25.797][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:25.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.799][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.800][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:25.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:25.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.805][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:25.806][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:25.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.808][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.810][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:25.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:25.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.814][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:25.816][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:25.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.818][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.819][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:25.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:25.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.824][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:25.825][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:25.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.827][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.829][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:25.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:25.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.833][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.838][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.847][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:25.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.856][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.865][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.870][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.874][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:25.879][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-09-03 21:20:25.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.885][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:25.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:25.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:25.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:25.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:25.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:25.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:25.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:25.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:25.906][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-09-03 21:20:25.907][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:25.915][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:25.927][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-09-03 21:20:25.928][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:25.930][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:25.931][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:25.933][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:25.934][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:25.935][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:25.940][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:25.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:25.942][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:25.943][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[2025-09-03 21:20:25.946][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.947][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.948][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.949][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:25.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:25.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.955][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:25.956][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:25.957][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.958][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.960][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:25.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:25.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.965][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:25.966][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:25.967][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.968][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.969][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:25.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:25.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.974][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:25.975][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:25.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.977][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.979][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:25.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:25.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.984][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:25.985][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:25.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.987][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.988][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:25.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:25.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.993][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:25.994][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:25.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:25.996][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:25.998][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:25.999][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.001][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.002][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:26.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.007][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:26.008][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:26.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.010][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:26.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:26.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.016][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:26.017][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:26.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.020][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.021][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:26.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:26.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.026][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:26.027][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:26.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.029][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.031][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:26.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:26.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.035][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:26.036][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:26.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.038][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.040][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:26.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:26.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.045][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.053][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.060][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.072][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.120][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.129][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:26.138][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-09-03 21:20:26.143][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.152][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.163][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:26.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:26.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:26.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:26.176][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:26.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:26.178][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:26.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:26.180][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-09-03 21:20:26.182][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:26.183][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:26.191][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-09-03 21:20:26.196][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:26.197][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:26.202][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:26.204][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:26.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:26.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:26.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:26.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:26.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:26.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:26.228][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.229][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.235][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.237][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.241][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:26.243][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:26.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.245][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.246][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:26.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:26.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.251][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:26.252][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:26.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.254][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.256][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:26.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:26.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.260][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:26.262][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:26.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.264][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.265][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:26.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:26.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.270][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:26.271][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:26.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.273][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.275][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:26.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:26.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.279][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:26.280][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:26.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.282][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.284][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:26.285][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.287][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.289][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:26.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.293][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:26.294][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:26.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.297][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.298][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:26.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:26.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.303][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:26.304][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:26.305][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.306][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.308][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:26.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:26.310][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.312][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:26.313][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:26.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.316][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.317][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:26.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:26.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.322][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:26.323][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:26.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.325][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.326][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:26.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:26.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.335][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.340][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.353][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.358][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.363][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:26.382][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-09-03 21:20:26.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.388][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.392][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:26.397][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:26.398][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:26.399][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:26.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:26.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:26.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:26.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:26.408][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-09-03 21:20:26.409][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:26.411][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:26.419][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-09-03 21:20:26.421][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:26.422][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:26.427][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:26.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:26.430][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:26.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:26.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:26.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:26.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:26.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:26.442][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.443][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.445][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.446][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.447][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.452][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:26.453][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:26.454][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.455][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.456][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:26.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:26.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.461][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:26.462][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:26.463][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.464][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.466][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:26.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:26.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.470][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:26.471][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:26.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.473][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.475][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:26.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:26.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.479][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:26.481][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:26.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.483][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.484][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:26.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:26.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.489][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:26.490][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:26.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.492][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.493][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:26.495][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.497][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.498][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:26.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.503][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:26.504][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:26.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.506][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.507][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:26.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:26.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.512][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:26.513][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:26.514][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.515][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.517][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:26.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:26.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.521][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:26.523][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:26.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.525][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.526][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:26.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:26.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.531][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:26.532][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:26.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.534][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.535][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:26.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:26.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.553][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.572][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:26.594][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-09-03 21:20:26.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.600][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:26.613][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:26.614][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:26.615][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:26.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:26.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:26.627][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:26.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:26.629][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-09-03 21:20:26.630][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:26.632][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:26.640][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-09-03 21:20:26.641][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:26.642][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:26.644][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:26.646][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:26.647][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:26.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:26.653][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:26.654][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:26.655][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:26.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:26.658][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.660][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.662][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.668][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:26.669][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:26.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.672][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.673][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:26.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:26.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.678][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:26.679][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:26.680][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.681][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.682][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:26.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:26.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.687][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:26.688][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:26.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.690][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.692][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:26.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:26.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.696][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:26.698][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:26.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.700][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.701][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:26.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:26.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.706][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:26.707][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:26.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.709][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.710][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:26.712][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.714][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.715][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:26.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.720][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:26.721][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:26.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.723][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:26.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:26.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.729][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:26.730][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:26.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.733][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.734][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:26.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:26.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.739][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:26.740][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:26.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.742][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.744][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:26.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:26.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.748][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:26.749][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:26.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.751][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.753][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:26.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:26.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.764][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.772][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.777][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:26.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.781][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.799][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.804][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:26.808][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-09-03 21:20:26.810][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.814][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.819][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:26.823][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:26.824][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:26.825][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:26.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:26.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:26.833][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:26.834][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[2025-09-03 21:20:26.835][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-09-03 21:20:26.836][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:26.838][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:26.843][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-09-03 21:20:26.847][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:26.849][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:26.850][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:26.855][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:26.856][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:26.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:26.862][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:26.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:26.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:26.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:26.868][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.869][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.870][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.871][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:26.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:26.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.877][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:26.878][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:26.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.880][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.882][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:26.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:26.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.887][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:26.888][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:26.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.890][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.891][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:26.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:26.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.896][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:26.897][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:26.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.899][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.901][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:26.902][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:26.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.904][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.905][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:26.907][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:26.908][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.909][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.910][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:26.911][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.913][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.915][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:26.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:26.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.928][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:26.929][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:26.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.935][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:26.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:26.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.949][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:26.950][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:26.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.952][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.954][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:26.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:26.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.967][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:26.968][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:26.973][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:26.974][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:26.976][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:27.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:27.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.030][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:27.031][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:27.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.038][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.039][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.066][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.081][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.094][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.140][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:27.145][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-09-03 21:20:27.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.151][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.156][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:27.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:27.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:27.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:27.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:27.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:27.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:27.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:27.174][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-09-03 21:20:27.175][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:27.177][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:27.184][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-09-03 21:20:27.185][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:27.191][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:27.192][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:27.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:27.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:27.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:27.212][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:27.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:27.224][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:27.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:27.236][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.238][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.240][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.241][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.250][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:27.251][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:27.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.257][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.259][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:27.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:27.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.268][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:27.273][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:27.274][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.275][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.278][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:27.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:27.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.288][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:27.298][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:27.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.303][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.305][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:27.314][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:27.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.316][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.325][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:27.333][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:27.335][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.336][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.337][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:27.339][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.340][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.345][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.347][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:27.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.358][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:27.359][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:27.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.362][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.367][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:27.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:27.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.376][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:27.377][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:27.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.383][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.385][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:27.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:27.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.395][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:27.396][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:27.402][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.414][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.416][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:27.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:27.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.422][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:27.423][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:27.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.425][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.431][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.436][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.455][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:27.475][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-09-03 21:20:27.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.481][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:27.491][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:27.492][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:27.493][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:27.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:27.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:27.501][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:27.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:27.503][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-09-03 21:20:27.505][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:27.506][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:27.516][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-09-03 21:20:27.517][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:27.523][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:27.524][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:27.527][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:27.528][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:27.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:27.545][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:27.549][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:27.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:27.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:27.560][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.562][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.564][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.565][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.570][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:27.571][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:27.572][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.573][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.579][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:27.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:27.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.592][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:27.600][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:27.601][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.608][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.610][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:27.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:27.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.619][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:27.620][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:27.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.626][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.628][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:27.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:27.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.638][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:27.639][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:27.640][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.642][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.643][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:27.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:27.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.653][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:27.655][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:27.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.657][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.658][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:27.661][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.664][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.665][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:27.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.673][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:27.681][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:27.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.683][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.688][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:27.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:27.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.714][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:27.716][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:27.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.724][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.726][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:27.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:27.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.730][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:27.732][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:27.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.738][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.739][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:27.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:27.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.746][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:27.747][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:27.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.749][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.750][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:27.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:27.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.769][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:27.801][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-09-03 21:20:27.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.807][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:27.816][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:27.817][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:27.818][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:27.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:27.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:27.826][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:27.827][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:27.828][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-09-03 21:20:27.829][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:27.831][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:27.836][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-09-03 21:20:27.837][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:27.839][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:27.840][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:27.842][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:27.843][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:27.845][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:27.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:27.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:27.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:27.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:27.857][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.858][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.860][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.862][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.867][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:27.868][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:27.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.870][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.872][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:27.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:27.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.877][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:27.878][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:27.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.880][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.882][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:27.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:27.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.887][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:27.888][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:27.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.890][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.892][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:27.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:27.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.897][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:27.898][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:27.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.900][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.902][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:27.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:27.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.907][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:27.908][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:27.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.910][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.912][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:27.913][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.924][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.926][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:27.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:27.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.931][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:27.932][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:27.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.935][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.936][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:27.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:27.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.941][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:27.942][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:27.943][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.944][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.946][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:27.947][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:27.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.950][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:27.952][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:27.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.954][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.955][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:27.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:27.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.960][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:27.961][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:27.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.963][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.965][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:27.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:27.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.970][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:27.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:27.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:27.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:27.998][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:27.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.002][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:28.016][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-09-03 21:20:28.017][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.019][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.022][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.027][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:28.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:28.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:28.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:28.039][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:28.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:28.041][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:28.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:28.043][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-09-03 21:20:28.044][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:28.046][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:28.054][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-09-03 21:20:28.055][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:28.057][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:28.058][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:28.060][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:28.061][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:28.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:28.068][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:28.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:28.070][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:28.071][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.TRACE[2025-09-03 21:20:28.074][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.075][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.077][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.083][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:28.085][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:28.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.087][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.088][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:28.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:28.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.093][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:28.094][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:28.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.097][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.098][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:28.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:28.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.103][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:28.104][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:28.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.107][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.108][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:28.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:28.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.120][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:28.121][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:28.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.124][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.125][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:28.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:28.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.130][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:28.131][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:28.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.133][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.134][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:28.136][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.138][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.139][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:28.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.144][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:28.145][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:28.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.147][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:28.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:28.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.153][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:28.154][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:28.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.157][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.158][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:28.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:28.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.163][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:28.164][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:28.165][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.166][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.168][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:28.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:28.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.172][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:28.174][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:28.175][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.176][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.177][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:28.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:28.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.191][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.196][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.205][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:28.228][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-09-03 21:20:28.229][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.234][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:28.243][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:28.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:28.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:28.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:28.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:28.252][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:28.253][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:28.254][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-09-03 21:20:28.256][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:28.257][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:28.264][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-09-03 21:20:28.266][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:28.267][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:28.272][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:28.274][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:28.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:28.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:28.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:28.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:28.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:28.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:28.292][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.293][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.294][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.295][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.301][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:28.302][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:28.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.305][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.306][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:28.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:28.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.316][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:28.318][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:28.319][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.320][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.322][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:28.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:28.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.326][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:28.327][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:28.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.330][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.331][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:28.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:28.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.336][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:28.337][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:28.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.339][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.340][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:28.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:28.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.345][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:28.346][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:28.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.348][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.350][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:28.351][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.353][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.355][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:28.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.360][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:28.361][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:28.363][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.364][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:28.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:28.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.371][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:28.372][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:28.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.375][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.377][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:28.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:28.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.384][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:28.385][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:28.387][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.388][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.390][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:28.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:28.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.396][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:28.398][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:28.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.400][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.402][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:28.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:28.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.408][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.414][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.426][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.438][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.451][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.463][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:28.469][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-09-03 21:20:28.471][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.477][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.483][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:28.488][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:28.489][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:28.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:28.497][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:28.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:28.500][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:28.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:28.502][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-09-03 21:20:28.504][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:28.506][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:28.515][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-09-03 21:20:28.516][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:28.518][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:28.520][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:28.522][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:28.523][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:28.524][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:28.531][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:28.532][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:28.533][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:28.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:28.538][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.546][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.549][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.551][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.557][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:28.559][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:28.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.561][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.563][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:28.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:28.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.570][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:28.571][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:28.573][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.574][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.576][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:28.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:28.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.582][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:28.584][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:28.585][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.586][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.588][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:28.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:28.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.595][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:28.597][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:28.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.600][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.601][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:28.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:28.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.608][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:28.609][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:28.611][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.612][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.614][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:28.616][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.617][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.619][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.621][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:28.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.627][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:28.629][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:28.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.632][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:28.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:28.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.640][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:28.641][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:28.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.644][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.646][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:28.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:28.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.653][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:28.654][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:28.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.657][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.659][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:28.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:28.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.665][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:28.667][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:28.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.670][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.672][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:28.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:28.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.702][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.715][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:28.739][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-09-03 21:20:28.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.753][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:28.759][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:28.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:28.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:28.769][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:28.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:28.771][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:28.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:28.774][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-09-03 21:20:28.776][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:28.778][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:28.786][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-09-03 21:20:28.793][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:28.795][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:28.797][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:28.799][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:28.800][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:28.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:28.808][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:28.809][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:28.811][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:28.812][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:28.815][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.816][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.819][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.821][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.826][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:28.828][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:28.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.830][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.832][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:28.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:28.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.838][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:28.839][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:28.841][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.842][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.844][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:28.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:28.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.851][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:28.852][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:28.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.855][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.857][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:28.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:28.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.863][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:28.865][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:28.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.868][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.869][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:28.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:28.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.876][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:28.877][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:28.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.880][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.882][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:28.884][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.886][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.888][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:28.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:28.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.894][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:28.896][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:28.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.899][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:28.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:28.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.907][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:28.909][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:28.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.911][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.914][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:28.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:28.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.920][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:28.921][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:28.923][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.924][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.926][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:28.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:28.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.932][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:28.934][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:28.935][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.937][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.939][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:28.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:28.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.945][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.948][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.957][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.963][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:28.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.969][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.975][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:28.994][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:28.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:28.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:28.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:29.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:29.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:29.006][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-09-03 21:20:29.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.020][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:29.033][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:29.034][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:29.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:29.043][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:29.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:29.045][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:29.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:29.048][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-09-03 21:20:29.050][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:29.052][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:29.060][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-09-03 21:20:29.064][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:29.066][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:29.072][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:29.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:29.080][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:29.081][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:29.093][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:29.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:29.095][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:29.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:29.104][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:29.106][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:29.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.112][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:29.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:29.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.121][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:29.126][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:29.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.129][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.130][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:29.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:29.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.135][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:29.136][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:29.137][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.138][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.140][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:29.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:29.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.145][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:29.146][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:29.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.148][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.149][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:29.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:29.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.154][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:29.155][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:29.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.157][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.159][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:29.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:29.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.164][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:29.165][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:29.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.167][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.168][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:29.170][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.172][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.173][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:29.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.178][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:29.179][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:29.180][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.181][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:29.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:29.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.187][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:29.188][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:29.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.191][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.192][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:29.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:29.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.197][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:29.198][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:29.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.200][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.202][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:29.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:29.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.207][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:29.208][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:29.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.210][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.211][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:29.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:29.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:29.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:29.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:29.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:29.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.236][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:29.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:29.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:29.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:29.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:29.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:29.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.261][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:29.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:29.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.269][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:29.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:29.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:29.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:29.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:29.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:29.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:29.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:29.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:29.305][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-09-03 21:20:29.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.315][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 21:20:29.339][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 21:20:29.342][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:29.346][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 21:20:29.347][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:29.350][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:29.351][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:29.352][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:29.357][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:29.358][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:29.359][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:29.361][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:29.362][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.371][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:29.375][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:29.376][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:29.377][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:29.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:29.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:29.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:29.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:29.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.398][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.414][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:29.433][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:29.436][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:29.437][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:29.452][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:29.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:29.454][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:29.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:29.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.478][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.485][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.493][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.500][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:29.508][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:29.509][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:29.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:29.522][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:29.524][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:29.525][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:29.526][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:29.531][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.538][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.539][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:29.583][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:29.584][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:29.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:29.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:29.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:29.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:29.594][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:29.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.599][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.604][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:29.608][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:29.609][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:29.611][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:29.616][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:29.618][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:29.623][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:29.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:29.625][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.638][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.644][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:29.653][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:29.655][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:29.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:29.667][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:29.668][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:29.670][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:29.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:29.673][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:29.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:29.692][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:29.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:29.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:29.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:29.703][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:29.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:29.706][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.712][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.718][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:29.724][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:29.726][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:29.727][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:29.733][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:29.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:29.736][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:29.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:29.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.751][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:29.757][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:29.758][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:29.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:29.766][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:29.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:29.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:29.769][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:29.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.783][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:29.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:29.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:29.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:29.798][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:29.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:29.800][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:29.802][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:29.803][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.809][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.815][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:29.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:29.829][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:29.830][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:29.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:29.838][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:29.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:29.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:29.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:29.872][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:29.873][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:29.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:29.885][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:29.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:29.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:29.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:29.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:29.911][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:29.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:29.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:29.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:29.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:29.925][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:29.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:29.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.935][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:29.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:29.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:29.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:29.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:29.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:29.961][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:29.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:29.965][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.971][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:29.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:29.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:29.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:29.984][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:29.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:29.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:29.994][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:29.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:29.997][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:29.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:30.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.014][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:30.021][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:30.022][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:30.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:30.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:30.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:30.034][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:30.036][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:30.037][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.051][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:30.057][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:30.058][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:30.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:30.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:30.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:30.069][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:30.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:30.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.101][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:30.107][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:30.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:30.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:30.117][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:30.119][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:30.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:30.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:30.123][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.129][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:30.140][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:30.141][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:30.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:30.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:30.151][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:30.152][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:30.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:30.155][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.161][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.193][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.206][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.212][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 21:20:30.269][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 21:20:30.273][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:30.280][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-09-03 21:20:30.282][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 21:20:30.294][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 21:20:30.298][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:30.305][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-09-03 21:20:30.310][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:30.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:30.319][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:30.320][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:30.327][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:30.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:30.330][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:30.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:30.333][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-09-03 21:20:30.334][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:30.336][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:30.350][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-09-03 21:20:30.351][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:30.356][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:30.358][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:30.364][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:30.369][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:30.371][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:30.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:30.395][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:30.396][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:30.397][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:30.400][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:30.402][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:30.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.404][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:30.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:30.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.412][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:30.413][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:30.414][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.415][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.417][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:30.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:30.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.422][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:30.423][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:30.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.427][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.429][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:30.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:30.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.441][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:30.442][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:30.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.449][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.453][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:30.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:30.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.458][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:30.459][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:30.460][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.462][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.463][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:30.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:30.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.468][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:30.469][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:30.471][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.472][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.474][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:30.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:30.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.479][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:30.481][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.487][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.489][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:30.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.502][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.507][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.514][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.528][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:30.529][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:30.531][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.532][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.534][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:30.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:30.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.548][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:30.550][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:30.553][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.555][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.561][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:30.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:30.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.574][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:30.575][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:30.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.582][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.584][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:30.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:30.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:30.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:30.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:30.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:30.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:30.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:30.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:30.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:30.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:30.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:30.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.625][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:30.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:30.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:30.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:30.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:30.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:30.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:30.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:30.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:30.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:30.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:30.650][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-09-03 21:20:30.652][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:30.669][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:30.670][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:30.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:30.700][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:30.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:30.707][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:30.708][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:30.713][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.722][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:30.736][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:30.737][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:30.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:30.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:30.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:30.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:30.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:30.749][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-09-03 21:20:30.750][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:30.752][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:30.759][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-09-03 21:20:30.761][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:30.762][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:30.763][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:30.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:30.767][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:30.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:30.774][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:30.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:30.776][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:30.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:30.780][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:30.782][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:30.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.784][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:30.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:30.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.791][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:30.792][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:30.793][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.795][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.796][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:30.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:30.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.802][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:30.803][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:30.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.805][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.807][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:30.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:30.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.813][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:30.814][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:30.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.816][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.818][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:30.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:30.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.823][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:30.824][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:30.826][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.827][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.829][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:30.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:30.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.832][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.834][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:30.835][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:30.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.837][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.839][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:30.840][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.843][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.844][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:30.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:30.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.850][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.851][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.853][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.860][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:30.861][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:30.862][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.863][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.865][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:30.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:30.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.869][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:30.871][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:30.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.873][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.874][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:30.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:30.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.879][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:30.880][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:30.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.882][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.884][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:30.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:30.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.888][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:30.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:30.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:30.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:30.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:30.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:30.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.902][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:30.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:30.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:30.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:30.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.917][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:30.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:30.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.922][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:30.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:30.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.926][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:30.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:30.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.931][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:30.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:30.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:30.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:30.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:30.939][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-09-03 21:20:30.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:30.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 21:20:30.973][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 21:20:30.976][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:30.980][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 21:20:30.981][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:30.984][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:30.985][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:30.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:30.991][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:30.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:30.994][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:30.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:30.996][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:30.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:30.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.005][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.014][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.015][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.023][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.036][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.050][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.057][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.059][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.075][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.080][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.094][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.095][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.111][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.116][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.121][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.130][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.131][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.132][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.137][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.138][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.139][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.141][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.155][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.156][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.163][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.165][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.172][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.176][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.188][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.192][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.214][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.215][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.216][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.217][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.218][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.227][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.232][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.233][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.247][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.252][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.256][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.257][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.258][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.263][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.264][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.267][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.272][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.287][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.292][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.293][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.300][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.301][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.303][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.304][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.312][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.325][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.333][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.336][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.339][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.351][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.357][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.358][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.368][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.377][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.383][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.389][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.390][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.391][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.398][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.402][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.404][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.410][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.415][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.421][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.422][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.424][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.432][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.433][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.434][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.436][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.442][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.448][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.454][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.455][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.463][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.466][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.469][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.475][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.487][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.488][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.496][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.497][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.499][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.502][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.513][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.526][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.528][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.529][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.536][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.539][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.546][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.558][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.567][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.570][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.572][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.585][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.591][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.592][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.594][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.601][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.604][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.607][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.613][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.618][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 21:20:31.649][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 21:20:31.653][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:31.659][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-03 21:20:31.660][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:31.665][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.667][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.668][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.675][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.677][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.678][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.681][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.689][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.690][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.693][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.699][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.709][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.711][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.726][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.732][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.738][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.744][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.745][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.747][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.753][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.765][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.766][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.772][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.784][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.795][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.797][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.798][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.807][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.829][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.834][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.841][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.842][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.843][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.850][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.874][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.875][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.876][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.883][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.887][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.895][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.909][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.916][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.918][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.920][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.921][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.923][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.943][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.950][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.953][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.954][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.961][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:31.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:31.973][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:31.974][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:31.975][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:31.982][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:31.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:31.985][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:31.986][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:31.994][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:31.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:31.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.001][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:32.012][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:32.013][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:32.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:32.021][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:32.022][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:32.023][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:32.025][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:32.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.038][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:32.044][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:32.045][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:32.046][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:32.053][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:32.055][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:32.056][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:32.057][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:32.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.063][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.065][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:32.076][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:32.077][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:32.079][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:32.085][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:32.087][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:32.088][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:32.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:32.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.102][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:32.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:32.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:32.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:32.116][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:32.118][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:32.119][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:32.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:32.122][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.133][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:32.139][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:32.140][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:32.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:32.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:32.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:32.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:32.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:32.155][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.156][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.167][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:32.173][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:32.174][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:32.175][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:32.182][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:32.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:32.185][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:32.187][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:32.188][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.194][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.200][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:32.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:32.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:32.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:32.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:32.228][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:32.230][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:32.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:32.233][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.240][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:32.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:32.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:32.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:32.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:32.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:32.265][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:32.266][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:32.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.274][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.280][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:32.286][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:32.287][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:32.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:32.296][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:32.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:32.299][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:32.300][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:32.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.308][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.314][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:32.320][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:32.322][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:32.323][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:32.330][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:32.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:32.333][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:32.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:32.336][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.342][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.347][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:32.353][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:32.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:32.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:32.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:32.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:32.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:32.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:32.368][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.373][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.379][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.403][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-03 21:20:32.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-03 21:20:32.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-03 21:20:32.419][biodb::testThat]
biodb.INFO [2025-09-03 21:20:32.421][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-09-03 21:20:32.422][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:32.423][biodb::testThat]
biodb.TRACE[2025-09-03 21:20:32.427][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-03 21:20:32.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-03 21:20:32.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.433][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:32.466][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:32.468][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:32.470][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:32.476][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:32.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:32.479][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:32.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 21:20:32.484][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 21:20:32.488][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:32.490][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-03 21:20:32.492][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:32.495][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:32.496][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:32.497][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:32.504][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:32.505][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:32.506][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:32.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:32.509][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.514][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.520][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 21:20:32.527][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 21:20:32.531][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:32.534][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-03 21:20:32.536][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:32.542][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:32.544][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:32.545][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:32.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:32.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:32.558][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:32.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:32.562][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.570][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:32.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:32.589][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:32.590][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:32.601][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:32.602][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:32.603][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:32.605][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:32.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:32.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:32.622][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-03 21:20:32.624][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:32.625][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:32.627][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:32.632][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:32.634][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:32.635][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:32.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:32.638][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.639][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.648][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:32.650][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 21:20:32.651][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 21:20:32.652][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 21:20:32.653][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:32.654][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.656][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.659][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.660][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.661][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.664][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.665][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:32.667][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:32.668][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.669][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.671][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.673][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 21:20:32.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.679][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.710][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-03 21:20:32.712][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:32.713][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:32.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:32.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:32.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:32.722][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:32.723][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.TRACE[2025-09-03 21:20:32.725][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.735][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:32.737][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 21:20:32.740][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 21:20:32.741][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 21:20:32.743][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:32.744][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.746][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.749][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.750][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.752][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.754][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.756][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:32.757][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:32.759][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.765][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.766][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.767][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.769][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 21:20:32.770][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.788][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-03 21:20:32.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:32.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:32.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:32.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:32.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:32.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:32.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:32.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.817][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:32.818][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 21:20:32.819][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 21:20:32.821][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 21:20:32.822][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:32.824][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.826][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.829][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.830][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.832][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.833][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.834][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.836][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:32.837][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:32.839][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.840][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.843][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.844][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 21:20:32.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.852][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.858][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:32.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.864][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-03 21:20:32.866][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-03 21:20:32.867][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-03 21:20:32.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.888][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:32.898][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:32.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:32.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:32.981][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:32.982][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:32.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:32.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:32.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:32.991][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:32.992][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 21:20:32.995][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 21:20:32.998][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:33.004][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-03 21:20:33.005][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 21:20:33.008][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 21:20:33.011][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:33.017][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-03 21:20:33.018][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:33.022][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:33.023][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:33.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:33.029][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:33.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:33.032][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:33.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:33.035][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:33.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:33.054][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:33.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:33.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:33.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:33.065][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:33.066][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:33.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.080][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:33.086][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:33.087][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:33.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:33.096][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:33.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:33.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:33.100][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:33.102][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.114][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:33.169][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-03 21:20:33.211][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:33.212][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:33.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:33.221][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:33.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:33.224][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:33.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:33.227][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.239][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.240][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 21:20:33.242][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 21:20:33.243][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 21:20:33.244][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.246][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.248][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.250][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.252][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.253][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.256][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.258][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.259][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.261][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.262][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.265][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.267][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 21:20:33.268][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.274][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.280][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.285][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.287][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-03 21:20:33.288][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:33.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:33.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:33.298][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:33.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:33.301][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:33.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:33.325][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.331][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.381][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.383][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 21:20:33.385][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 21:20:33.386][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 21:20:33.387][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.389][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.391][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.393][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.395][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.396][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.399][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.401][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.419][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.421][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.422][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.425][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.427][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 21:20:33.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.447][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-03 21:20:33.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:33.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:33.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:33.458][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:33.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:33.461][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:33.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:33.464][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.476][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.477][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 21:20:33.479][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 21:20:33.480][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 21:20:33.482][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.483][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.485][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.487][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.489][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.491][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.493][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.495][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.496][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.498][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.499][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.502][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.504][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 21:20:33.505][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.523][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-03 21:20:33.525][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-03 21:20:33.526][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-03 21:20:33.538][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-03 21:20:33.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-03 21:20:33.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-03 21:20:33.549][biodb::testThat]
biodb.INFO [2025-09-03 21:20:33.551][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-09-03 21:20:33.552][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:33.554][biodb::testThat]
biodb.TRACE[2025-09-03 21:20:33.558][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-03 21:20:33.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-03 21:20:33.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.570][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.582][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:33.598][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:33.599][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:33.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:33.608][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:33.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:33.611][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:33.612][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 21:20:33.616][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 21:20:33.620][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:33.623][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-03 21:20:33.624][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:33.628][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:33.629][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:33.630][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:33.637][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:33.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:33.640][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:33.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:33.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 21:20:33.662][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 21:20:33.666][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:33.669][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-03 21:20:33.670][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:33.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:33.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:33.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:33.683][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:33.685][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:33.686][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:33.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:33.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.698][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:33.702][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:33.703][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:33.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:33.710][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:33.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:33.712][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:33.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:33.714][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.723][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:33.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:33.728][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-03 21:20:33.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:33.731][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:33.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:33.737][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:33.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:33.739][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:33.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:33.741][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.751][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.752][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 21:20:33.753][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 21:20:33.754][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 21:20:33.755][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.756][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.757][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.758][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.760][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.761][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.762][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.764][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.765][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.766][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.768][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.769][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.771][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.772][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 21:20:33.773][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.778][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.782][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.787][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-03 21:20:33.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:33.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:33.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:33.803][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:33.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:33.806][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:33.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:33.808][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.816][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.817][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.818][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 21:20:33.819][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 21:20:33.820][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 21:20:33.821][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.823][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.824][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.826][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.827][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.828][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.830][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.831][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.832][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.834][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.835][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.837][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.838][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 21:20:33.839][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.841][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.844][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.853][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-03 21:20:33.855][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:33.856][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:33.857][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:33.862][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:33.863][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:33.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:33.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:33.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.871][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.876][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.877][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 21:20:33.878][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 21:20:33.879][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 21:20:33.880][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.881][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.882][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.885][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.886][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.887][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.889][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.890][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.891][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:33.893][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.894][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.895][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.896][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.897][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 21:20:33.898][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.903][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.904][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.905][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.907][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:33.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.912][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-03 21:20:33.913][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-03 21:20:33.914][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-03 21:20:33.924][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.933][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:33.938][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:33.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:33.945][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:33.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:33.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:33.953][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:33.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:33.955][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:33.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 21:20:33.959][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 21:20:33.962][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:33.964][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-03 21:20:33.965][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 21:20:33.969][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 21:20:33.971][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:33.974][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-03 21:20:33.975][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:33.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:33.986][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:33.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:33.993][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:33.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:33.995][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:33.996][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:33.997][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:33.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.002][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:34.011][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:34.012][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:34.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:34.018][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:34.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:34.020][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:34.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:34.022][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.024][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.027][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.032][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:34.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:34.037][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:34.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:34.044][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:34.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:34.046][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:34.047][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:34.048][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.058][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:34.062][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-03 21:20:34.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:34.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:34.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:34.072][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:34.073][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:34.074][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:34.075][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:34.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.085][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.086][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 21:20:34.087][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 21:20:34.088][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 21:20:34.090][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.091][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.092][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.094][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.095][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.097][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.099][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.100][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.101][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.102][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.103][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.106][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.107][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 21:20:34.108][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.113][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.117][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.122][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-03 21:20:34.124][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:34.125][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:34.126][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:34.131][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:34.132][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:34.133][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:34.134][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:34.136][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.140][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.145][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.146][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 21:20:34.147][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 21:20:34.148][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 21:20:34.149][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.150][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.151][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.153][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.154][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.155][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.156][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.158][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.166][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.167][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.169][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.170][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.173][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.174][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 21:20:34.175][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.189][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-03 21:20:34.190][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:34.191][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:34.192][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:34.197][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:34.199][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:34.200][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:34.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:34.202][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.211][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.212][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 21:20:34.214][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 21:20:34.215][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 21:20:34.216][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.217][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.218][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.220][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.221][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.223][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.225][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.226][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.227][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.228][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.230][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.232][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.233][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 21:20:34.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.248][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-03 21:20:34.249][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-03 21:20:34.250][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-03 21:20:34.260][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-03 21:20:34.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-03 21:20:34.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-03 21:20:34.268][biodb::testThat]
biodb.INFO [2025-09-03 21:20:34.269][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-09-03 21:20:34.270][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:34.271][biodb::testThat]
biodb.TRACE[2025-09-03 21:20:34.275][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-03 21:20:34.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-03 21:20:34.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.279][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.286][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.289][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:34.303][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:34.304][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:34.305][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:34.310][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:34.311][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:34.312][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:34.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 21:20:34.318][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 21:20:34.322][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:34.324][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-03 21:20:34.325][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:34.328][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:34.330][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:34.331][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:34.339][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:34.340][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:34.342][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:34.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:34.345][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.351][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-03 21:20:34.374][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 21:20:34.377][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:34.379][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-03 21:20:34.380][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:34.384][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:34.385][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:34.386][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:34.391][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:34.392][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:34.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:34.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:34.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.401][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:34.410][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:34.411][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:34.412][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:34.418][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:34.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:34.420][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:34.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:34.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.427][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.432][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:34.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:34.437][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-03 21:20:34.439][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:34.440][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:34.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:34.447][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:34.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:34.449][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:34.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:34.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.461][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.462][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 21:20:34.463][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 21:20:34.464][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 21:20:34.465][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.466][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.468][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.470][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.471][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.472][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.473][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.474][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.476][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.477][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.478][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.479][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.481][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.482][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 21:20:34.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.493][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.498][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-03 21:20:34.499][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:34.500][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:34.501][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:34.507][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:34.508][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:34.509][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:34.511][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:34.512][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.522][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.523][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 21:20:34.524][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 21:20:34.525][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 21:20:34.526][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.527][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.529][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.531][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.532][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.533][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.536][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.537][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.538][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.539][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.540][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.542][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.544][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 21:20:34.552][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.558][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.568][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-03 21:20:34.569][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:34.570][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:34.571][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:34.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:34.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:34.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:34.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:34.582][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.586][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.591][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.592][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 21:20:34.593][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 21:20:34.594][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 21:20:34.595][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.597][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.598][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.600][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.601][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.602][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.605][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.606][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.607][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.608][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.609][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.611][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.612][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 21:20:34.614][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.618][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.628][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-03 21:20:34.629][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-03 21:20:34.630][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-03 21:20:34.651][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.656][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:34.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:34.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:34.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:34.681][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:34.682][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:34.683][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:34.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 21:20:34.687][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 21:20:34.690][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:34.692][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-03 21:20:34.693][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 21:20:34.697][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-03 21:20:34.700][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:34.703][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-03 21:20:34.704][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:34.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:34.708][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:34.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:34.714][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:34.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:34.716][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:34.717][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:34.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.719][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.723][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.727][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:34.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:34.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:34.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:34.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:34.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:34.749][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:34.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:34.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.757][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:34.770][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:34.771][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:34.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:34.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:34.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:34.780][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:34.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:34.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.787][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.792][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:34.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:34.796][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-03 21:20:34.798][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:34.799][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:34.800][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:34.805][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:34.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:34.808][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:34.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:34.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.819][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.820][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 21:20:34.821][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 21:20:34.822][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 21:20:34.826][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.827][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.833][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.835][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.840][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.842][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.848][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.849][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.854][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.855][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.857][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.859][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.860][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 21:20:34.861][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.870][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.875][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-03 21:20:34.876][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:34.877][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:34.878][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:34.884][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:34.885][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:34.887][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:34.888][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:34.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.894][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.900][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.901][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 21:20:34.902][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 21:20:34.904][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 21:20:34.905][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.907][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.908][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.909][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.910][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.912][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.913][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.915][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.917][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.918][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.919][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.921][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.922][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.923][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.924][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 21:20:34.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.934][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.945][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-03 21:20:34.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:34.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:34.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:34.955][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:34.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:34.957][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:34.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:34.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.968][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.969][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-03 21:20:34.970][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-03 21:20:34.971][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-03 21:20:34.972][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.973][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.975][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.977][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.978][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.979][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.981][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.982][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.984][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-03 21:20:34.985][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.986][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.987][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.988][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.989][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-03 21:20:34.990][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:34.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:34.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:34.999][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.004][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-03 21:20:35.006][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-03 21:20:35.007][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-03 21:20:35.036][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-03 21:20:35.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-03 21:20:35.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-03 21:20:35.050][biodb::testThat]
biodb.INFO [2025-09-03 21:20:35.052][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-09-03 21:20:35.053][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:35.055][biodb::testThat]
biodb.DEBUG[2025-09-03 21:20:35.057][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-09-03 21:20:35.058][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:35.060][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:35.066][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-09-03 21:20:35.067][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:35.070][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:35.072][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:35.078][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:35.079][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:35.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:35.090][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:35.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:35.099][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:35.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:35.103][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.105][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.106][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.107][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.113][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:35.114][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:35.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.116][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.118][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:35.119][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:35.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.121][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.123][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:35.124][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:35.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.126][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.128][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:35.129][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:35.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.131][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.133][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:35.134][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:35.135][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.136][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.138][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:35.139][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:35.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.141][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.142][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:35.144][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:35.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.146][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.147][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:35.148][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:35.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.151][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.152][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:35.153][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:35.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.156][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.157][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:35.165][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:35.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.168][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.187][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.196][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:35.232][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-09-03 21:20:35.233][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-09-03 21:20:35.253][biodb::testThat]
biodb.INFO [2025-09-03 21:20:35.254][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-09-03 21:20:35.260][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:35.261][biodb::testThat]
biodb.DEBUG[2025-09-03 21:20:35.279][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-09-03 21:20:35.280][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-09-03 21:20:35.281][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-09-03 21:20:35.287][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:35.293][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-09-03 21:20:35.300][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-09-03 21:20:35.308][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-09-03 21:20:35.309][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:35.310][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-09-03 21:20:35.312][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:35.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:35.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:35.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:35.321][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:35.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:35.323][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:35.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:35.327][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.328][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.329][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.330][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.331][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.336][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:35.337][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:35.338][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.339][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.341][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:35.342][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:35.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.344][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.346][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:35.347][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:35.348][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.349][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.350][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:35.352][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:35.353][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.354][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.355][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:35.356][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:35.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.359][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.360][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:35.361][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:35.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.363][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.365][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:35.366][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:35.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.368][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.370][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:35.371][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:35.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.373][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.375][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:35.376][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:35.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.378][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.379][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:35.380][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:35.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.383][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.384][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.393][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.404][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.409][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:35.423][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:35.424][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:35.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:35.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:35.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:35.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:35.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:35.436][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.437][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.440][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.441][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.446][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:35.447][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:35.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.449][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.451][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:35.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:35.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.455][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:35.456][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:35.457][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.459][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.460][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:35.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:35.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.465][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:35.466][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:35.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.468][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.470][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:35.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:35.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.474][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:35.475][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:35.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.478][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.479][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:35.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:35.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.484][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:35.485][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:35.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.487][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.489][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:35.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:35.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.494][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:35.495][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:35.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.497][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.498][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:35.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:35.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.503][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:35.504][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:35.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.506][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.508][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:35.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:35.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.512][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:35.514][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:35.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.516][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.517][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:35.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:35.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.522][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:35.523][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:35.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.525][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.527][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:35.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:35.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.531][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:35.532][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:35.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.535][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.536][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:35.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:35.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.541][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.545][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.564][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.568][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:35.573][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:35.580][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:35.582][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:35.588][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:35.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:35.590][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:35.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:35.593][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.595][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.597][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.603][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:35.604][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:35.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.606][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.608][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:35.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:35.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.612][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:35.614][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:35.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.616][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.617][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:35.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:35.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.622][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:35.623][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:35.624][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.625][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.627][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:35.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:35.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.631][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:35.632][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:35.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.635][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.636][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:35.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:35.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.641][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:35.642][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:35.643][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.644][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.645][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:35.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:35.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.650][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:35.651][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:35.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.653][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.655][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:35.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:35.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.659][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:35.661][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:35.662][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.663][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:35.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:35.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.669][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:35.670][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:35.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.672][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.674][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:35.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:35.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.679][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:35.680][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:35.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.682][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.683][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:35.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:35.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.688][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:35.689][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:35.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.691][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.693][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:35.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:35.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.707][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.710][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:35.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.719][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.731][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.737][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.740][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.742][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.752][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.760][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.789][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:35.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:35.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:35.795][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-09-03 21:20:35.796][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-09-03 21:20:35.797][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-09-03 21:20:35.815][biodb::testThat]
biodb.INFO [2025-09-03 21:20:35.817][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-09-03 21:20:35.818][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:35.820][biodb::testThat]
biodb.INFO [2025-09-03 21:20:35.855][biodb::testThat]
biodb.INFO [2025-09-03 21:20:35.857][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-09-03 21:20:35.858][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:35.860][biodb::testThat]
biodb.INFO [2025-09-03 21:20:35.871][biodb::testThat]
biodb.INFO [2025-09-03 21:20:35.872][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-09-03 21:20:35.874][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:35.875][biodb::testThat]
sched.DEBUG[2025-09-03 21:20:35.879][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-09-03 21:20:35.883][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:35.898][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-09-03 21:20:35.902][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-09-03 21:20:35.919][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:35.920][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:35.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.922][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:35.923][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:35.925][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:35.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:35.927][ef$get] fields variable is a list.
biodb.INFO [2025-09-03 21:20:35.929][biodb::testThat]
biodb.INFO [2025-09-03 21:20:35.930][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-09-03 21:20:35.931][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:35.932][biodb::testThat]
biodb.ERROR[2025-09-03 21:20:35.947][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-09-03 21:20:35.965][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-09-03 21:20:35.980][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-03 21:20:35.982][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-03 21:20:35.983][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-03 21:20:35.984][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:35.985][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:35.993][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:35.994][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:35.995][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:35.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-03 21:20:36.008][biodb::testContext]
biodb.INFO [2025-09-03 21:20:36.009][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 21:20:36.011][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-09-03 21:20:36.012][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 21:20:36.013][biodb::testContext]
biodb.INFO [2025-09-03 21:20:36.015][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-03 21:20:36.017][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-09-03 21:20:36.022][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 21:20:36.023][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-03 21:20:36.024][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-03 21:20:36.025][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.030][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-03 21:20:36.031][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-03 21:20:36.036][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.043][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-03 21:20:36.045][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-03 21:20:36.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.052][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.053][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-03 21:20:36.054][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-03 21:20:36.055][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-03 21:20:36.056][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.058][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.060][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-03 21:20:36.061][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-03 21:20:36.062][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-03 21:20:36.063][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.066][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-03 21:20:36.067][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-03 21:20:36.068][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.072][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-03 21:20:36.073][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-03 21:20:36.074][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-03 21:20:36.075][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.078][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-03 21:20:36.079][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-03 21:20:36.080][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.083][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-03 21:20:36.084][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-03 21:20:36.086][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-03 21:20:36.087][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.090][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-03 21:20:36.091][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-03 21:20:36.092][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-03 21:20:36.093][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-03 21:20:36.094][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-03 21:20:36.096][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-03 21:20:36.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.100][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-03 21:20:36.101][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-03 21:20:36.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.105][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-03 21:20:36.106][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-03 21:20:36.107][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.110][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.111][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-03 21:20:36.112][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-03 21:20:36.113][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.114][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.115][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.116][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-03 21:20:36.117][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-03 21:20:36.118][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-03 21:20:36.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.123][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-03 21:20:36.124][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-03 21:20:36.135][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-03 21:20:36.136][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.143][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-03 21:20:36.148][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-03 21:20:36.150][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-03 21:20:36.151][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.154][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-03 21:20:36.160][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:36.164][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-03 21:20:36.166][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.167][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 21:20:36.168][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.173][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 21:20:36.174][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:36.177][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 21:20:36.179][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 21:20:36.180][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 21:20:36.184][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.185][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-03 21:20:36.186][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 21:20:36.190][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:36.191][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.192][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 21:20:36.192][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 21:20:36.192][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 21:20:36.192][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 21:20:36.192][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 21:20:36.193][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 21:20:36.194][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:36.195][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:36.196][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 21:20:36.198][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:36.199][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:36.200][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 21:20:36.201][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:36.202][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 21:20:36.203][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 21:20:36.204][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:36.205][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:36.207][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-03 21:20:36.209][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:36.210][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 21:20:36.211][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.219][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 21:20:36.221][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.222][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 21:20:36.224][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:36.225][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 21:20:36.226][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 21:20:36.227][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 21:20:36.228][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.230][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-03 21:20:36.231][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 21:20:36.232][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:36.233][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.234][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 21:20:36.234][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 21:20:36.234][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 21:20:36.234][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 21:20:36.234][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 21:20:36.235][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 21:20:36.236][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:36.237][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:36.238][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 21:20:36.240][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:36.241][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:36.242][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 21:20:36.243][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:36.244][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 21:20:36.245][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 21:20:36.246][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:36.247][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:36.249][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-03 21:20:36.251][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.252][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-03 21:20:36.253][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.254][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 21:20:36.255][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.256][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 21:20:36.258][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:36.259][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 21:20:36.260][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 21:20:36.261][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 21:20:36.262][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:36.263][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-03 21:20:36.264][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 21:20:36.266][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:36.267][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.268][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:36.269][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 21:20:36.270][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:36.271][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:36.272][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 21:20:36.273][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:36.274][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:36.275][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 21:20:36.277][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:36.278][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 21:20:36.279][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 21:20:36.280][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:36.281][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:36.282][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-03 21:20:36.284][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.285][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 21:20:36.287][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.288][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 21:20:36.289][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.290][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 21:20:36.291][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:36.292][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 21:20:36.293][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 21:20:36.294][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 21:20:36.296][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:36.297][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-03 21:20:36.298][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 21:20:36.299][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:36.300][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.301][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:36.302][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 21:20:36.303][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:36.304][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:36.305][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 21:20:36.307][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:36.308][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:36.309][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 21:20:36.310][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:36.311][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 21:20:36.312][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 21:20:36.313][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:36.314][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:36.316][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 21:20:36.317][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.331][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.334][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.335][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.338][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[2025-09-03 21:20:36.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.341][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.343][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.344][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.345][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.349][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.350][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.351][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.352][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.353][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[2025-09-03 21:20:36.354][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.355][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.358][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.360][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.361][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.362][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.367][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.369][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.374][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[2025-09-03 21:20:36.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.377][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.380][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.381][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.390][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.393][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.403][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.404][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.412][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[2025-09-03 21:20:36.414][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-03 21:20:36.416][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-03 21:20:36.418][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-03 21:20:36.420][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-03 21:20:36.422][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 21:20:36.424][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-03 21:20:36.426][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-03 21:20:36.428][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-03 21:20:36.430][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-03 21:20:36.432][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-03 21:20:36.434][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 21:20:36.436][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-03 21:20:36.439][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-03 21:20:36.441][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-03 21:20:36.443][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-03 21:20:36.445][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-03 21:20:36.447][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-03 21:20:36.449][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-03 21:20:36.451][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 21:20:36.453][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-03 21:20:36.455][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-03 21:20:36.457][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-03 21:20:36.460][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-03 21:20:36.462][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-03 21:20:36.464][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-03 21:20:36.466][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-03 21:20:36.468][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-03 21:20:36.470][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-03 21:20:36.472][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-03 21:20:36.474][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-03 21:20:36.476][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-03 21:20:36.478][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-03 21:20:36.480][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-03 21:20:36.482][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-03 21:20:36.485][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-03 21:20:36.487][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-03 21:20:36.489][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-03 21:20:36.491][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-03 21:20:36.493][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-03 21:20:36.495][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-03 21:20:36.497][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-03 21:20:36.499][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-03 21:20:36.501][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-03 21:20:36.503][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-03 21:20:36.505][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-03 21:20:36.508][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-03 21:20:36.510][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-03 21:20:36.512][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-03 21:20:36.514][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-03 21:20:36.516][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-03 21:20:36.518][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-03 21:20:36.520][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-03 21:20:36.522][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-03 21:20:36.524][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-03 21:20:36.526][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-03 21:20:36.528][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-03 21:20:36.530][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-03 21:20:36.533][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-03 21:20:36.535][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-03 21:20:36.537][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-03 21:20:36.539][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-03 21:20:36.541][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-03 21:20:36.543][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-03 21:20:36.545][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-03 21:20:36.547][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-03 21:20:36.549][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-03 21:20:36.551][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 21:20:36.553][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 21:20:36.555][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-03 21:20:36.558][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-03 21:20:36.560][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-03 21:20:36.562][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-03 21:20:36.564][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-03 21:20:36.566][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-03 21:20:36.568][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-03 21:20:36.570][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-03 21:20:36.572][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-03 21:20:36.574][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-03 21:20:36.576][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-03 21:20:36.579][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-03 21:20:36.581][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-03 21:20:36.583][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-03 21:20:36.585][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-03 21:20:36.587][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-03 21:20:36.589][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-03 21:20:36.591][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 21:20:36.592][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.595][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.596][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:36.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:36.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.799][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:36.803][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:36.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.806][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.809][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.810][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.811][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:36.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:36.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.818][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.DEBUG[2025-09-03 21:20:36.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:36.821][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:36.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.824][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.825][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.827][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[2025-09-03 21:20:36.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:36.831][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:36.832][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.833][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.836][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.DEBUG[2025-09-03 21:20:36.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:36.840][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:36.841][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:36.849][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:36.850][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.851][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.852][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:36.858][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:36.859][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.861][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.862][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.863][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.865][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:36.867][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:36.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.870][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.871][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.872][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.874][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.876][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:36.877][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:36.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.880][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.882][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:36.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:36.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.889][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.890][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.891][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.DEBUG[2025-09-03 21:20:36.893][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:36.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:36.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.902][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.903][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:36.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:36.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.910][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.911][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.912][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:36.914][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:36.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.916][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.919][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[2025-09-03 21:20:36.920][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:36.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:36.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.928][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[2025-09-03 21:20:36.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:36.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:36.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:36.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:36.934][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:36.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:36.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:36.939][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-03 21:20:36.941][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-03 21:20:36.944][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:36.946][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-03 21:20:36.947][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.949][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 21:20:36.950][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.952][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 21:20:36.953][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.955][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-03 21:20:36.956][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-03 21:20:36.957][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 21:20:36.959][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.960][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-03 21:20:36.962][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 21:20:36.963][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-03 21:20:36.963][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-03 21:20:36.963][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-03 21:20:36.963][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-03 21:20:36.963][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-03 21:20:36.963][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-03 21:20:36.963][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-03 21:20:36.963][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-03 21:20:36.963][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-03 21:20:36.963][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-03 21:20:36.963][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-03 21:20:36.965][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:36.966][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 21:20:36.966][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 21:20:36.966][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 21:20:36.968][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-03 21:20:36.969][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:36.971][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:36.972][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 21:20:36.973][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:36.975][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:36.976][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 21:20:36.978][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-03 21:20:36.978][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-03 21:20:36.979][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 21:20:36.981][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 21:20:36.982][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:36.983][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-03 21:20:36.983][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-03 21:20:36.985][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 21:20:36.988][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 21:20:36.990][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-03 21:20:36.992][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 21:20:36.994][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 21:20:36.997][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 21:20:37.002][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-03 21:20:37.007][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-03 21:20:37.009][biodb::testThat]
biodb.INFO [2025-09-03 21:20:37.011][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-09-03 21:20:37.012][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:37.014][biodb::testThat]
sched.DEBUG[2025-09-03 21:20:37.018][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-03 21:20:37.022][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:37.031][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-03 21:20:37.032][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 21:20:37.038][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 [2025-09-03 21:20:37.042][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:37.046][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-03 21:20:37.047][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:37.050][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:37.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:37.053][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:37.061][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.062][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 21:20:37.068][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 [2025-09-03 21:20:37.072][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:37.079][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-03 21:20:37.081][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:37.084][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:37.085][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:37.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:37.095][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.096][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.098][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.131][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:37.133][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:37.134][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:37.142][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.146][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 21:20:37.155][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 [2025-09-03 21:20:37.160][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:37.163][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-03 21:20:37.165][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:37.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:37.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:37.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:37.178][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.180][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.181][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.183][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 21:20:37.186][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 [2025-09-03 21:20:37.190][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:37.193][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-03 21:20:37.195][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:37.198][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:37.199][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:37.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:37.209][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.212][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.215][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:37.216][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:37.217][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:37.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.229][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".
sched.DEBUG[2025-09-03 21:20:37.235][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 [2025-09-03 21:20:37.239][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:37.242][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-03 21:20:37.243][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:37.246][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:37.247][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:37.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:37.261][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.264][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.265][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 21:20:37.267][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 [2025-09-03 21:20:37.271][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:37.273][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-03 21:20:37.274][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:37.276][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:37.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:37.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:37.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.290][FUN] Functions in observer 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[2025-09-03 21:20:37.292][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 [2025-09-03 21:20:37.296][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:37.303][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-09-03 21:20:37.305][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:37.311][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:37.313][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:37.314][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:37.321][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.324][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-03 21:20:37.334][biodb::testThat]
biodb.INFO [2025-09-03 21:20:37.335][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-09-03 21:20:37.337][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:37.338][biodb::testThat]
sched.DEBUG[2025-09-03 21:20:37.343][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 [2025-09-03 21:20:37.347][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:37.353][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-09-03 21:20:37.354][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:37.358][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:37.359][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:37.360][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:37.366][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.368][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.369][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-03 21:20:37.376][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 [2025-09-03 21:20:37.379][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:37.385][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-09-03 21:20:37.386][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:37.393][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:37.394][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:37.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:37.410][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.414][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.419][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.INFO [2025-09-03 21:20:37.435][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-03 21:20:37.437][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-03 21:20:37.439][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-03 21:20:37.440][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:37.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:37.443][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.445][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-03 21:20:37.452][biodb::testContext]
biodb.INFO [2025-09-03 21:20:37.453][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 21:20:37.454][biodb::testContext] Test context - Test web services
biodb.INFO [2025-09-03 21:20:37.456][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 21:20:37.457][biodb::testContext]
biodb.INFO [2025-09-03 21:20:37.460][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-03 21:20:37.463][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-09-03 21:20:37.469][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 21:20:37.470][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-03 21:20:37.472][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-03 21:20:37.473][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.474][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.477][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-03 21:20:37.479][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-03 21:20:37.480][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.481][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.484][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-03 21:20:37.486][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-03 21:20:37.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.491][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-03 21:20:37.492][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-03 21:20:37.494][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-03 21:20:37.495][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.496][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.499][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-03 21:20:37.501][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-03 21:20:37.502][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-03 21:20:37.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.506][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.508][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-03 21:20:37.509][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-03 21:20:37.510][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.515][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-03 21:20:37.516][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-03 21:20:37.518][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-03 21:20:37.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.523][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-03 21:20:37.524][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-03 21:20:37.526][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.528][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[2025-09-03 21:20:37.529][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-03 21:20:37.530][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-03 21:20:37.531][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-03 21:20:37.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.536][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-03 21:20:37.537][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-03 21:20:37.538][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-03 21:20:37.540][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-03 21:20:37.541][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-03 21:20:37.542][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-03 21:20:37.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.546][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-03 21:20:37.547][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-03 21:20:37.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.550][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.551][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-03 21:20:37.552][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-03 21:20:37.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.555][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[2025-09-03 21:20:37.556][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-03 21:20:37.557][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-03 21:20:37.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.560][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.562][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-03 21:20:37.563][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-03 21:20:37.564][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-03 21:20:37.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.567][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.DEBUG[2025-09-03 21:20:37.568][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-03 21:20:37.569][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-03 21:20:37.580][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-03 21:20:37.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.584][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-03 21:20:37.585][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-03 21:20:37.587][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-03 21:20:37.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.591][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-03 21:20:37.593][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:37.594][self$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[2025-09-03 21:20:37.595][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:37.596][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 21:20:37.597][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:37.599][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 21:20:37.600][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:37.601][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 21:20:37.602][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 21:20:37.603][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 21:20:37.604][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:37.605][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-03 21:20:37.606][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 21:20:37.607][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:37.609][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:37.610][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 21:20:37.610][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 21:20:37.610][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 21:20:37.610][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 21:20:37.610][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 21:20:37.611][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 21:20:37.612][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:37.613][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:37.614][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 21:20:37.615][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:37.616][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:37.617][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 21:20:37.618][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:37.619][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 21:20:37.620][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 21:20:37.621][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:37.622][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:37.624][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-03 21:20:37.626][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:37.627][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 21:20:37.628][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:37.629][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 21:20:37.630][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:37.631][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 21:20:37.632][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:37.634][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 21:20:37.635][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 21:20:37.636][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 21:20:37.637][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:37.638][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-03 21:20:37.639][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 21:20:37.640][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:37.641][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:37.642][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 21:20:37.642][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 21:20:37.642][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 21:20:37.642][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 21:20:37.642][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 21:20:37.644][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 21:20:37.645][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:37.646][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:37.647][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 21:20:37.648][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:37.650][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:37.651][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 21:20:37.653][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:37.654][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 21:20:37.655][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 21:20:37.656][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:37.657][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:37.658][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-03 21:20:37.660][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:37.661][self$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[2025-09-03 21:20:37.663][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:37.664][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 21:20:37.665][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:37.666][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 21:20:37.667][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:37.668][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 21:20:37.669][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 21:20:37.670][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 21:20:37.672][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:37.673][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-03 21:20:37.674][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 21:20:37.675][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:37.676][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:37.677][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:37.678][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 21:20:37.679][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:37.687][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:37.688][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 21:20:37.689][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:37.690][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:37.691][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 21:20:37.692][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:37.693][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 21:20:37.694][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 21:20:37.695][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:37.696][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:37.697][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-03 21:20:37.699][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:37.700][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 21:20:37.701][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:37.703][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 21:20:37.704][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:37.705][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 21:20:37.706][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:37.707][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 21:20:37.708][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 21:20:37.709][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 21:20:37.710][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:37.711][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-03 21:20:37.712][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 21:20:37.714][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:37.715][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:37.716][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:37.717][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 21:20:37.718][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:37.719][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:37.720][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 21:20:37.721][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:37.722][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:37.723][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 21:20:37.724][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:37.725][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 21:20:37.726][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 21:20:37.727][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:37.728][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:37.730][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 21:20:37.731][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.733][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.752][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.753][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.755][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.757][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[2025-09-03 21:20:37.758][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.761][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.762][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.764][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.766][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[2025-09-03 21:20:37.767][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.770][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.771][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.783][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[2025-09-03 21:20:37.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.793][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[2025-09-03 21:20:37.794][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.798][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[2025-09-03 21:20:37.799][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.803][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.DEBUG[2025-09-03 21:20:37.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.806][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.807][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.810][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[2025-09-03 21:20:37.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.817][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-03 21:20:37.819][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-03 21:20:37.821][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-03 21:20:37.823][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-03 21:20:37.824][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 21:20:37.826][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-03 21:20:37.828][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-03 21:20:37.830][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-03 21:20:37.831][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-03 21:20:37.833][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-03 21:20:37.838][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 21:20:37.840][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-03 21:20:37.842][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-03 21:20:37.844][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-03 21:20:37.846][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-03 21:20:37.848][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-03 21:20:37.850][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-03 21:20:37.852][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-03 21:20:37.854][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 21:20:37.856][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-03 21:20:37.858][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-03 21:20:37.860][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-03 21:20:37.862][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-03 21:20:37.864][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-03 21:20:37.866][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-03 21:20:37.868][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-03 21:20:37.870][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-03 21:20:37.872][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-03 21:20:37.874][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-03 21:20:37.876][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-03 21:20:37.878][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-03 21:20:37.880][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-03 21:20:37.882][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-03 21:20:37.884][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-03 21:20:37.887][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-03 21:20:37.889][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-03 21:20:37.891][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-03 21:20:37.893][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-03 21:20:37.895][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-03 21:20:37.897][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-03 21:20:37.899][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-03 21:20:37.901][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-03 21:20:37.903][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-03 21:20:37.905][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-03 21:20:37.907][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-03 21:20:37.909][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-03 21:20:37.911][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-03 21:20:37.913][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-03 21:20:37.915][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-03 21:20:37.917][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-03 21:20:37.920][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-03 21:20:37.922][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-03 21:20:37.924][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-03 21:20:37.926][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-03 21:20:37.928][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-03 21:20:37.930][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-03 21:20:37.932][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-03 21:20:37.934][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-03 21:20:37.936][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-03 21:20:37.938][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-03 21:20:37.940][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-03 21:20:37.942][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-03 21:20:37.944][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-03 21:20:37.946][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-03 21:20:37.948][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-03 21:20:37.950][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-03 21:20:37.952][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 21:20:37.954][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 21:20:37.956][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-03 21:20:37.958][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-03 21:20:37.960][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-03 21:20:37.961][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-03 21:20:37.963][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-03 21:20:37.965][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-03 21:20:37.966][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-03 21:20:37.968][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-03 21:20:37.969][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-03 21:20:37.971][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-03 21:20:37.972][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-03 21:20:37.974][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-03 21:20:37.975][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-03 21:20:37.977][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-03 21:20:37.979][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-03 21:20:37.980][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-03 21:20:37.982][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-03 21:20:37.983][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 21:20:37.984][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.986][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.987][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[2025-09-03 21:20:37.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:37.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:37.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:37.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:37.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:37.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:37.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:37.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:37.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.004][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.006][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[2025-09-03 21:20:38.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.014][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[2025-09-03 21:20:38.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.017][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.019][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.021][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.024][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.040][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.041][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.042][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.043][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.045][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.047][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.050][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.053][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.054][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.056][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.059][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.062][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.063][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.064][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.065][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.066][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.068][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.070][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.071][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.072][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.073][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.074][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.084][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.085][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.086][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.087][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.088][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.089][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.092][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.096][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.097][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.099][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.105][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.106][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.109][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.112][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.117][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-03 21:20:38.118][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-03 21:20:38.121][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:38.122][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-03 21:20:38.123][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.124][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 21:20:38.125][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.127][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 21:20:38.128][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.129][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-03 21:20:38.130][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-03 21:20:38.131][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 21:20:38.132][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.133][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-03 21:20:38.134][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 21:20:38.135][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-03 21:20:38.135][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-03 21:20:38.135][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-03 21:20:38.135][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-03 21:20:38.135][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-03 21:20:38.135][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-03 21:20:38.135][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-03 21:20:38.135][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-03 21:20:38.135][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-03 21:20:38.135][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-03 21:20:38.135][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-03 21:20:38.137][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:38.138][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 21:20:38.138][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 21:20:38.138][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 21:20:38.139][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-03 21:20:38.140][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:38.141][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:38.142][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 21:20:38.143][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:38.144][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:38.145][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 21:20:38.146][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-03 21:20:38.146][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-03 21:20:38.147][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 21:20:38.148][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 21:20:38.149][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.150][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-03 21:20:38.150][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-03 21:20:38.152][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 21:20:38.154][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 21:20:38.156][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-03 21:20:38.157][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 21:20:38.159][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 21:20:38.161][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 21:20:38.164][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-03 21:20:38.168][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-03 21:20:38.170][biodb::testThat]
biodb.INFO [2025-09-03 21:20:38.171][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-09-03 21:20:38.172][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:38.173][biodb::testThat]
sched.DEBUG[2025-09-03 21:20:38.176][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-03 21:20:38.178][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:38.185][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-03 21:20:38.186][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 21:20:38.190][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-09-03 21:20:38.193][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:38.197][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-09-03 21:20:38.198][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-09-03 21:20:38.207][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-03 21:20:38.208][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-03 21:20:38.209][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-03 21:20:38.210][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.211][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.213][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.215][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-03 21:20:38.219][biodb::testContext]
biodb.INFO [2025-09-03 21:20:38.221][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 21:20:38.222][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-09-03 21:20:38.223][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-03 21:20:38.224][biodb::testContext]
biodb.INFO [2025-09-03 21:20:38.226][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-03 21:20:38.228][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-09-03 21:20:38.232][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 21:20:38.234][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-03 21:20:38.235][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-03 21:20:38.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.239][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-03 21:20:38.240][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-03 21:20:38.241][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.245][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-03 21:20:38.246][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-03 21:20:38.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.249][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[2025-09-03 21:20:38.250][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-03 21:20:38.252][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-03 21:20:38.253][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-03 21:20:38.254][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.258][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-03 21:20:38.259][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-03 21:20:38.261][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-03 21:20:38.262][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.264][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.DEBUG[2025-09-03 21:20:38.265][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-03 21:20:38.266][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-03 21:20:38.268][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.272][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-03 21:20:38.273][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-03 21:20:38.274][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-03 21:20:38.275][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.279][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-03 21:20:38.281][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-03 21:20:38.282][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.283][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.285][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-03 21:20:38.287][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-03 21:20:38.288][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-03 21:20:38.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.293][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-03 21:20:38.295][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-03 21:20:38.296][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-03 21:20:38.298][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-03 21:20:38.299][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-03 21:20:38.301][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-03 21:20:38.302][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.303][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.305][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.306][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-03 21:20:38.308][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-03 21:20:38.309][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.313][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-03 21:20:38.314][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-03 21:20:38.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.320][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-03 21:20:38.321][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-03 21:20:38.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.325][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.327][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-03 21:20:38.328][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-03 21:20:38.330][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-03 21:20:38.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.334][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.335][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-03 21:20:38.336][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-03 21:20:38.346][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-03 21:20:38.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.350][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[2025-09-03 21:20:38.352][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-03 21:20:38.357][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-03 21:20:38.358][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-03 21:20:38.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.371][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-03 21:20:38.377][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:38.378][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-03 21:20:38.380][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.381][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 21:20:38.382][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.387][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 21:20:38.388][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:38.391][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 21:20:38.396][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 21:20:38.397][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 21:20:38.398][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.400][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-03 21:20:38.401][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 21:20:38.402][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:38.403][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.404][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 21:20:38.404][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 21:20:38.404][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 21:20:38.404][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 21:20:38.404][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 21:20:38.405][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 21:20:38.407][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:38.408][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:38.409][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 21:20:38.410][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:38.411][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:38.412][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 21:20:38.413][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:38.414][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 21:20:38.421][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 21:20:38.423][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:38.424][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:38.425][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-03 21:20:38.427][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:38.428][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 21:20:38.429][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.430][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 21:20:38.431][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.432][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 21:20:38.433][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:38.434][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 21:20:38.436][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 21:20:38.437][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 21:20:38.438][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.439][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-03 21:20:38.440][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 21:20:38.441][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:38.442][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.443][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 21:20:38.443][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 21:20:38.443][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 21:20:38.443][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-03 21:20:38.443][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-03 21:20:38.444][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 21:20:38.445][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:38.446][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:38.447][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 21:20:38.448][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:38.449][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:38.450][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 21:20:38.451][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:38.452][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 21:20:38.453][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 21:20:38.454][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:38.455][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:38.457][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-03 21:20:38.459][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.460][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-03 21:20:38.461][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.462][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 21:20:38.463][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.464][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 21:20:38.465][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:38.466][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 21:20:38.467][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-03 21:20:38.469][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 21:20:38.470][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:38.471][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-03 21:20:38.472][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 21:20:38.473][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:38.474][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.475][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:38.476][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 21:20:38.477][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:38.478][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:38.479][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 21:20:38.480][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:38.481][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:38.482][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 21:20:38.483][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:38.485][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 21:20:38.485][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 21:20:38.487][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:38.488][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:38.489][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-03 21:20:38.491][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.492][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-03 21:20:38.493][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.494][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 21:20:38.495][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.496][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 21:20:38.497][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:38.498][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-03 21:20:38.500][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-03 21:20:38.501][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 21:20:38.502][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:38.503][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-03 21:20:38.504][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 21:20:38.505][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:38.506][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.506][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:38.507][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-03 21:20:38.508][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:38.509][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:38.510][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 21:20:38.511][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:38.512][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:38.513][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 21:20:38.513][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:38.514][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 21:20:38.515][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 21:20:38.516][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:38.517][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-03 21:20:38.518][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 21:20:38.519][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.521][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.522][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.523][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.524][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.532][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.533][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.534][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.535][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.537][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.DEBUG[2025-09-03 21:20:38.537][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.540][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.541][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.DEBUG[2025-09-03 21:20:38.542][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.543][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.546][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.547][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.547][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.553][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.553][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.554][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.555][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.557][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.558][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.563][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.566][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.567][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.569][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.573][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.574][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[2025-09-03 21:20:38.575][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.578][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[2025-09-03 21:20:38.579][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.583][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.585][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.587][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.588][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-03 21:20:38.589][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-03 21:20:38.591][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-03 21:20:38.592][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-03 21:20:38.593][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 21:20:38.595][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-03 21:20:38.596][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-03 21:20:38.597][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-03 21:20:38.598][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-03 21:20:38.600][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-03 21:20:38.601][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 21:20:38.602][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-03 21:20:38.604][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-03 21:20:38.605][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-03 21:20:38.606][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-03 21:20:38.608][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-03 21:20:38.609][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-03 21:20:38.610][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-03 21:20:38.611][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 21:20:38.613][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-03 21:20:38.614][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-03 21:20:38.615][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-03 21:20:38.617][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-03 21:20:38.618][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-03 21:20:38.619][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-03 21:20:38.621][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-03 21:20:38.622][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-03 21:20:38.623][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-03 21:20:38.624][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-03 21:20:38.626][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-03 21:20:38.627][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-03 21:20:38.628][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-03 21:20:38.630][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-03 21:20:38.631][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-03 21:20:38.632][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-03 21:20:38.633][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-03 21:20:38.635][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-03 21:20:38.636][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-03 21:20:38.637][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-03 21:20:38.639][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-03 21:20:38.640][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-03 21:20:38.641][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-03 21:20:38.643][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-03 21:20:38.644][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-03 21:20:38.646][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-03 21:20:38.647][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-03 21:20:38.648][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-03 21:20:38.650][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-03 21:20:38.651][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-03 21:20:38.652][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-03 21:20:38.654][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-03 21:20:38.655][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-03 21:20:38.656][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-03 21:20:38.658][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-03 21:20:38.659][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-03 21:20:38.661][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-03 21:20:38.662][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-03 21:20:38.663][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-03 21:20:38.665][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-03 21:20:38.666][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-03 21:20:38.667][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-03 21:20:38.669][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-03 21:20:38.670][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-03 21:20:38.671][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-03 21:20:38.672][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-03 21:20:38.674][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-03 21:20:38.675][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 21:20:38.676][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 21:20:38.678][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-03 21:20:38.679][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-03 21:20:38.681][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-03 21:20:38.682][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-03 21:20:38.684][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-03 21:20:38.691][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-03 21:20:38.693][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-03 21:20:38.695][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-03 21:20:38.696][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-03 21:20:38.698][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-03 21:20:38.699][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-03 21:20:38.701][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-03 21:20:38.702][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-03 21:20:38.704][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-03 21:20:38.705][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-03 21:20:38.707][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-03 21:20:38.709][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-03 21:20:38.710][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-03 21:20:38.711][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.712][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.713][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.714][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".
biodb.DEBUG[2025-09-03 21:20:38.715][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.721][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.724][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.725][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.728][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[2025-09-03 21:20:38.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.741][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[2025-09-03 21:20:38.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.755][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[2025-09-03 21:20:38.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.758][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.759][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.762][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[2025-09-03 21:20:38.763][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.769][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[2025-09-03 21:20:38.770][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.772][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.783][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[2025-09-03 21:20:38.784][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.788][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.791][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.792][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.796][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.797][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.798][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.800][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.803][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.DEBUG[2025-09-03 21:20:38.804][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.806][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.810][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[2025-09-03 21:20:38.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.814][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.816][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-03 21:20:38.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-03 21:20:38.826][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-03 21:20:38.828][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-03 21:20:38.830][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:38.831][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-03 21:20:38.832][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.834][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-03 21:20:38.835][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.836][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-03 21:20:38.837][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.838][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-03 21:20:38.839][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-03 21:20:38.840][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-03 21:20:38.842][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.843][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-03 21:20:38.844][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-03 21:20:38.845][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-03 21:20:38.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-03 21:20:38.845][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-03 21:20:38.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-03 21:20:38.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-03 21:20:38.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-03 21:20:38.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-03 21:20:38.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-03 21:20:38.845][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-03 21:20:38.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-03 21:20:38.845][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-03 21:20:38.846][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-03 21:20:38.847][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-03 21:20:38.847][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-03 21:20:38.847][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-03 21:20:38.848][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-03 21:20:38.850][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:38.851][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:38.852][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-03 21:20:38.853][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-03 21:20:38.854][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-03 21:20:38.855][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-03 21:20:38.856][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-03 21:20:38.856][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-03 21:20:38.857][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-03 21:20:38.858][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-03 21:20:38.859][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-03 21:20:38.860][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-03 21:20:38.860][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-03 21:20:38.862][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-03 21:20:38.864][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-03 21:20:38.865][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-03 21:20:38.867][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-03 21:20:38.869][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-03 21:20:38.871][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-03 21:20:38.874][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-03 21:20:38.878][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-03 21:20:38.880][biodb::testThat]
biodb.INFO [2025-09-03 21:20:38.881][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-09-03 21:20:38.882][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-03 21:20:38.883][biodb::testThat]
sched.DEBUG[2025-09-03 21:20:38.886][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-03 21:20:38.889][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:38.897][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-03 21:20:38.898][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-03 21:20:38.903][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 [2025-09-03 21:20:38.907][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-03 21:20:38.909][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-09-03 21:20:38.910][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-03 21:20:38.916][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-09-03 21:20:38.920][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-03 21:20:38.922][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-03 21:20:38.940][FUN] Found encoding UTF-8 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-09-03 21:20:38.943][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-03 21:20:38.945][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-03 21:20:38.947][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-03 21:20:38.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-03 21:20:38.951][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:38.952][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:38.959][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:38.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:38.962][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:38.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-03 21:20:38.969][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:38.971][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:38.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:38.974][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:38.976][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:38.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:38.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:38.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:38.982][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:38.983][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:38.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:38.986][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:38.988][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-03 21:20:38.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-03 21:20:38.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:38.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:38.994][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:38.996][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:38.997][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:38.999][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.001][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-03 21:20:39.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-03 21:20:39.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.007][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-03 21:20:39.009][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-03 21:20:39.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.011][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.013][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-03 21:20:39.015][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-03 21:20:39.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.018][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.020][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:39.022][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:39.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.024][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.027][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:39.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-03 21:20:39.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.033][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:39.034][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:39.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.037][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.039][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-03 21:20:39.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-03 21:20:39.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.045][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:39.047][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:39.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.050][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.052][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:39.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-03 21:20:39.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.058][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:39.060][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:39.061][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.063][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.072][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-03 21:20:39.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-03 21:20:39.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.079][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:39.081][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:39.082][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.083][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.085][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-03 21:20:39.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-03 21:20:39.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.091][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:39.093][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:39.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.096][ef$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.098][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-03 21:20:39.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-03 21:20:39.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.104][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:39.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:39.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.110][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:39.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:39.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:39.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:39.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-03 21:20:39.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-03 21:20:39.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:39.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:39.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:39.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:39.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:39.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:39.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:39.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:39.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.150][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:39.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:39.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-03 21:20:39.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-03 21:20:39.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-03 21:20:39.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-03 21:20:39.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-03 21:20:39.161][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-09-03 21:20:39.166][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-03 21:20:39.168][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-03 21:20:39.169][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-03 21:20:39.170][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-03 21:20:39.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-03 21:20:39.173][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-03 21:20:39.174][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-03 21:20:39.175][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-03 21:20:39.176][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
 19.756   0.527  24.329

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.9350.0671.104
ChebiEntry0.1790.0030.198