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This page was generated on 2025-09-01 11:38 -0400 (Mon, 01 Sep 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4824
merida1macOS 12.7.5 Montereyx86_644.5.1 RC (2025-06-05 r88288) -- "Great Square Root" 4606
kjohnson1macOS 13.6.6 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4547
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 4579
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 206/2341HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.14.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-08-28 13:40 -0400 (Thu, 28 Aug 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: RELEASE_3_21
git_last_commit: b8d718f
git_last_commit_date: 2025-04-15 12:39:10 -0400 (Tue, 15 Apr 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  

CHECK results for biodbChebi on nebbiolo1

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: 1.14.0
Command: /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings biodbChebi_1.14.0.tar.gz
StartedAt: 2025-08-31 20:30:43 -0400 (Sun, 31 Aug 2025)
EndedAt: 2025-08-31 20:31:51 -0400 (Sun, 31 Aug 2025)
EllapsedTime: 68.2 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.21-bioc/R/site-library --timings biodbChebi_1.14.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.21-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 ‘1.14.0’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘biodbChebi’ can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... OK
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking code files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking loading without being on the library search path ... OK
* checking dependencies in R code ... OK
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... OK
* checking for missing documentation entries ... OK
* checking for code/documentation mismatches ... OK
* checking Rd \usage sections ... OK
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD INSTALL biodbChebi
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.21-bioc/R/site-library’
* installing *source* package ‘biodbChebi’ ...
** this is package ‘biodbChebi’ version ‘1.14.0’
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (biodbChebi)

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


R version 4.5.1 (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 [2025-08-31 20:31:26.428][biodb::testContext]
biodb.INFO [2025-08-31 20:31:26.430][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-31 20:31:26.443][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-08-31 20:31:26.444][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-31 20:31:26.445][biodb::testContext]
biodb.INFO [2025-08-31 20:31:26.450][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-31 20:31:26.452][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-31 20:31:26.459][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 20:31:26.460][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-31 20:31:26.461][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-31 20:31:26.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.464][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-31 20:31:26.482][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-31 20:31:26.483][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.486][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-31 20:31:26.487][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-31 20:31:26.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.489][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.490][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-31 20:31:26.491][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-31 20:31:26.492][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-31 20:31:26.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.496][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-31 20:31:26.496][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-31 20:31:26.497][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-31 20:31:26.498][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.499][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.501][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-31 20:31:26.502][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-31 20:31:26.503][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.504][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.505][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[2025-08-31 20:31:26.505][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-31 20:31:26.506][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-31 20:31:26.507][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-31 20:31:26.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.510][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.511][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-31 20:31:26.512][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-31 20:31:26.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.515][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.516][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-31 20:31:26.517][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-31 20:31:26.518][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-31 20:31:26.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.521][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-31 20:31:26.522][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-31 20:31:26.523][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-31 20:31:26.524][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-31 20:31:26.525][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-31 20:31:26.526][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-31 20:31:26.527][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.530][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-31 20:31:26.531][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-31 20:31:26.532][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.534][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-31 20:31:26.535][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-31 20:31:26.536][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.537][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.538][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.539][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-31 20:31:26.540][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-31 20:31:26.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.542][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.543][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-31 20:31:26.544][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-31 20:31:26.545][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.548][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-31 20:31:26.549][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-31 20:31:26.550][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.551][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.552][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-31 20:31:26.553][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-31 20:31:26.557][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-31 20:31:26.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.560][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[2025-08-31 20:31:26.561][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-31 20:31:26.561][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-31 20:31:26.562][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-31 20:31:26.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.568][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-31 20:31:26.600][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:26.616][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-31 20:31:26.624][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:26.625][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 20:31:26.626][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:26.627][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 20:31:26.628][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:26.629][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 20:31:26.630][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-31 20:31:26.631][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 20:31:26.632][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:26.633][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-31 20:31:26.634][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 20:31:26.635][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:26.636][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:26.636][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 20:31:26.636][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 20:31:26.636][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 20:31:26.636][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-31 20:31:26.636][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-31 20:31:26.637][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 20:31:26.638][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:26.639][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:26.640][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 20:31:26.641][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:26.642][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:26.643][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 20:31:26.644][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:26.645][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 20:31:26.646][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 20:31:26.646][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:26.647][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:26.649][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-31 20:31:26.650][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:26.651][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-31 20:31:26.652][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:26.653][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 20:31:26.654][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:26.655][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 20:31:26.656][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:26.657][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 20:31:26.658][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-31 20:31:26.659][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 20:31:26.660][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:26.661][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-31 20:31:26.662][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 20:31:26.663][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:26.664][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:26.665][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 20:31:26.665][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 20:31:26.665][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 20:31:26.665][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-31 20:31:26.665][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-31 20:31:26.666][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 20:31:26.667][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:26.668][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:26.669][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 20:31:26.669][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:26.670][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:26.671][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 20:31:26.672][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:26.673][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 20:31:26.674][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 20:31:26.675][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:26.676][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:26.677][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-31 20:31:26.679][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:26.680][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-31 20:31:26.681][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:26.682][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 20:31:26.683][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:26.684][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 20:31:26.685][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:26.686][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 20:31:26.693][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-31 20:31:26.695][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 20:31:26.696][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:26.697][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-31 20:31:26.698][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 20:31:26.699][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:26.700][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:26.701][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:26.703][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 20:31:26.704][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:26.705][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:26.706][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 20:31:26.707][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:26.708][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:26.709][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 20:31:26.710][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:26.711][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 20:31:26.712][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 20:31:26.713][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:26.714][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:26.716][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-31 20:31:26.718][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:26.719][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-31 20:31:26.720][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:26.721][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 20:31:26.722][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:26.723][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 20:31:26.724][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:26.726][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 20:31:26.727][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-31 20:31:26.728][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 20:31:26.729][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:26.730][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-31 20:31:26.731][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 20:31:26.732][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:26.733][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:26.734][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:26.735][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 20:31:26.736][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:26.737][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:26.738][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 20:31:26.739][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:26.740][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:26.741][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 20:31:26.742][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:26.743][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 20:31:26.744][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 20:31:26.745][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:26.746][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:26.751][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 20:31:26.752][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:26.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:26.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.758][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.759][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:26.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:26.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:26.765][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:26.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.768][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:26.770][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:26.771][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.773][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:26.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:26.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:26.780][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:26.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.781][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.782][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:26.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:26.785][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.787][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:26.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:26.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.791][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.792][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.793][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:26.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:26.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.796][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[2025-08-31 20:31:26.797][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:26.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:26.799][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.801][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:26.803][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:26.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:26.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:26.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.810][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[2025-08-31 20:31:26.811][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:26.812][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:26.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.827][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[2025-08-31 20:31:26.828][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.829][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:26.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:26.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:26.834][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:26.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.836][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[2025-08-31 20:31:26.837][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:26.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:26.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.841][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.DEBUG[2025-08-31 20:31:26.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:26.844][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:26.845][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.846][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.847][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-31 20:31:26.852][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-31 20:31:26.853][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-31 20:31:26.855][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-31 20:31:26.856][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-31 20:31:26.858][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-31 20:31:26.859][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-31 20:31:26.861][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-31 20:31:26.862][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-31 20:31:26.864][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-31 20:31:26.865][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-31 20:31:26.867][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-31 20:31:26.868][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-31 20:31:26.870][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-31 20:31:26.871][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-31 20:31:26.872][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-31 20:31:26.874][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-31 20:31:26.875][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-31 20:31:26.877][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-31 20:31:26.878][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-31 20:31:26.880][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-31 20:31:26.881][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-31 20:31:26.883][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-31 20:31:26.884][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-31 20:31:26.885][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-31 20:31:26.887][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-31 20:31:26.888][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-31 20:31:26.890][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-31 20:31:26.891][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-31 20:31:26.893][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-31 20:31:26.894][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-31 20:31:26.895][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-31 20:31:26.897][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-31 20:31:26.898][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-31 20:31:26.899][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-31 20:31:26.901][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-31 20:31:26.902][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-31 20:31:26.903][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-31 20:31:26.905][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-31 20:31:26.906][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-31 20:31:26.907][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-31 20:31:26.909][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-31 20:31:26.910][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-31 20:31:26.911][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-31 20:31:26.913][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-31 20:31:26.914][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-31 20:31:26.915][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-31 20:31:26.917][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-31 20:31:26.918][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-31 20:31:26.919][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-31 20:31:26.921][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-31 20:31:26.922][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-31 20:31:26.923][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-31 20:31:26.925][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-31 20:31:26.926][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-31 20:31:26.927][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-31 20:31:26.929][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-31 20:31:26.930][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-31 20:31:26.931][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-31 20:31:26.933][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-31 20:31:26.934][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-31 20:31:26.935][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-31 20:31:26.937][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-31 20:31:26.938][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-31 20:31:26.939][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-31 20:31:26.941][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-31 20:31:26.942][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-31 20:31:26.943][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-31 20:31:26.945][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-31 20:31:26.946][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-31 20:31:26.947][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-31 20:31:26.949][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-31 20:31:26.950][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-31 20:31:26.952][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-31 20:31:26.953][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-31 20:31:26.954][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-31 20:31:26.955][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-31 20:31:26.957][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-31 20:31:26.958][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-31 20:31:26.960][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-31 20:31:26.961][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-31 20:31:26.962][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-31 20:31:26.963][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-31 20:31:26.970][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-31 20:31:26.971][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-31 20:31:26.974][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 20:31:26.975][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:26.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:26.977][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.982][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:26.984][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:26.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:26.986][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:26.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:26.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:26.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:26.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:26.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:26.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:26.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:26.995][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:26.996][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:26.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:27.003][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:27.004][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:27.005][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:27.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:27.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:27.007][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:27.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:27.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:27.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:27.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:27.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:27.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:27.013][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:27.014][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:27.015][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:27.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:27.017][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:27.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:27.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:27.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:27.020][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:27.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:27.022][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:27.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:27.024][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:27.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:27.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:27.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:27.027][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:27.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:27.029][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[2025-08-31 20:31:27.030][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:27.031][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:27.032][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:27.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:27.033][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:27.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:27.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:27.036][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:27.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:27.038][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:27.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:27.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:27.040][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:27.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:27.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:27.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:27.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:27.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:27.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:27.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:27.047][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[2025-08-31 20:31:27.048][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:27.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:27.050][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:27.051][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:27.052][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:27.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:27.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:27.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:27.055][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:27.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:27.057][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:27.058][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:27.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:27.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:27.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:27.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:27.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:27.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:27.064][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:27.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:27.065][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[2025-08-31 20:31:27.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:27.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:27.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:27.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:27.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:27.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:27.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:27.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:27.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:27.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:27.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:27.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:27.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:27.077][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[2025-08-31 20:31:27.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:27.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:27.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:27.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:27.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:27.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:27.084][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[2025-08-31 20:31:27.084][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:27.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:27.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:27.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:27.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:27.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:27.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:27.091][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-31 20:31:27.101][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-31 20:31:27.103][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:27.104][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-31 20:31:27.105][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:27.106][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 20:31:27.107][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:27.108][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 20:31:27.109][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:27.110][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-31 20:31:27.111][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-31 20:31:27.112][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 20:31:27.113][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:27.114][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-31 20:31:27.115][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 20:31:27.116][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-31 20:31:27.116][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-31 20:31:27.116][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-31 20:31:27.116][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-31 20:31:27.116][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-31 20:31:27.116][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-31 20:31:27.116][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-31 20:31:27.116][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-31 20:31:27.116][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-31 20:31:27.116][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-31 20:31:27.116][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-31 20:31:27.117][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:27.118][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 20:31:27.118][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 20:31:27.118][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 20:31:27.119][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-31 20:31:27.120][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:27.121][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:27.121][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 20:31:27.122][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:27.123][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:27.124][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 20:31:27.125][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-31 20:31:27.125][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-31 20:31:27.126][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 20:31:27.127][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 20:31:27.128][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:27.129][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-31 20:31:27.129][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-31 20:31:27.135][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-31 20:31:27.136][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-31 20:31:27.138][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-31 20:31:27.139][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-31 20:31:27.141][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-31 20:31:27.142][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-31 20:31:27.164][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-31 20:31:27.166][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-08-31 20:31:27.170][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-08-31 20:31:27.174][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-08-31 20:31:27.211][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-31 20:31:27.212][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-31 20:31:27.214][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-08-31 20:31:27.215][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-31 20:31:27.223][biodb::testThat]
biodb.INFO [2025-08-31 20:31:27.224][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-08-31 20:31:27.225][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:27.226][biodb::testThat]
biodb.TRACE[2025-08-31 20:31:27.230][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-08-31 20:31:27.231][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:27.235][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:27.243][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:27.244][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:27.245][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:27.257][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:27.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:27.259][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:27.260][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:27.270][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.271][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.273][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.275][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.290][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:27.291][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:27.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.293][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.319][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:27.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:27.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.323][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:27.324][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:27.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.326][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.327][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:27.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:27.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.331][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:27.332][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:27.333][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.334][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.336][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:27.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:27.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.340][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:27.341][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:27.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.343][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.344][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:27.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:27.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.348][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:27.349][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:27.350][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.351][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.353][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:27.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:27.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.357][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:27.358][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:27.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.360][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.361][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:27.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:27.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.365][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:27.366][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:27.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.368][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:27.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:27.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.382][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:27.383][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:27.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.385][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.387][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:27.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:27.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.391][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:27.392][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:27.393][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.394][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.395][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:27.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:27.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.399][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:27.400][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:27.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.402][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.403][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:27.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:27.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.411][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.419][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.421][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.423][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.431][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:27.478][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-08-31 20:31:27.480][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:27.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:27.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.484][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:27.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:27.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.514][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:27.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:27.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.518][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:27.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:27.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:27.523][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:27.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:27.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:27.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.530][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-31 20:31:27.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-31 20:31:27.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.534][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-31 20:31:27.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-31 20:31:27.536][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.537][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-31 20:31:27.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-31 20:31:27.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.541][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-31 20:31:27.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-31 20:31:27.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.559][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.575][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.582][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.603][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.605][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.606][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.607][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.611][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.626][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.633][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.637][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.638][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.640][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.641][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.657][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.659][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.660][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.661][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.669][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.670][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.671][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:27.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.683][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:27.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:27.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.687][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:27.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:27.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.691][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:27.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:27.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.694][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:27.696][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:27.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.697][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.698][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:27.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:27.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.709][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:27.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:27.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.713][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:27.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:27.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.716][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:27.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:27.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.720][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:27.721][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:27.722][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.723][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.724][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:27.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:27.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.735][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:27.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:27.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.738][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:27.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:27.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.742][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:27.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:27.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.746][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:27.747][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:27.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.749][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.750][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:27.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:27.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.761][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:27.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:27.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:27.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:27.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:27.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:27.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.772][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:27.773][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:27.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.775][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.776][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:27.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:27.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.790][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:27.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:27.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.794][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:27.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:27.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.798][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:27.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:27.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.802][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:27.803][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:27.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.805][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.806][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:27.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:27.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.817][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-31 20:31:27.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:27.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.821][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-31 20:31:27.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:27.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.825][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-31 20:31:27.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:27.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.830][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-31 20:31:27.831][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:27.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.833][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.834][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-31 20:31:27.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:27.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.845][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:27.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:27.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.849][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:27.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:27.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.854][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:27.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:27.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.858][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:27.859][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:27.860][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.861][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.862][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:27.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:27.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.873][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:27.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:27.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.877][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:27.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:27.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.881][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:27.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:27.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.885][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:27.886][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:27.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.888][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.889][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:27.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:27.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.900][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:27.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:27.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.904][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:27.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:27.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.908][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:27.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:27.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.912][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:27.913][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:27.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.915][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.916][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:27.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:27.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.932][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:27.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:27.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.936][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:27.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:27.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.940][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:27.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:27.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.945][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:27.946][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:27.947][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.948][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.949][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:27.950][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:27.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.960][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:27.961][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:27.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.963][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.967][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:27.968][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:27.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.970][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.974][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:27.975][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:27.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.977][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.981][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:27.982][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:27.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.983][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.987][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:27.988][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:27.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.990][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:27.994][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:27.995][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:27.996][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:27.997][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.001][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:28.002][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:28.003][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.004][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.008][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:28.009][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:28.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.010][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.014][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-08-31 20:31:28.015][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:28.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.017][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.021][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:28.022][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:28.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.024][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.028][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:28.029][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:28.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.031][ef$get] fields variable is a list.
biodb.INFO [2025-08-31 20:31:28.037][biodb::testThat]
biodb.INFO [2025-08-31 20:31:28.038][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-08-31 20:31:28.039][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:28.040][biodb::testThat]
biodb.DEBUG[2025-08-31 20:31:28.053][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-08-31 20:31:28.060][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:28.064][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15440".
biodb.TRACE[2025-08-31 20:31:28.070][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:28.071][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml".
biodb.DEBUG[2025-08-31 20:31:28.072][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:28.096][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:28.097][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:28.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:28.099][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:28.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:28.105][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:28.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:28.106][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:28.107][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:28.110][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:28.111][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:28.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.113][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:28.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:28.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.134][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:28.135][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:28.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.137][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.138][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:28.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:28.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.142][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:28.143][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:28.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.145][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.146][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:28.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:28.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.150][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:28.151][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:28.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.153][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.154][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:28.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:28.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.158][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:28.159][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:28.160][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.161][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.162][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:28.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:28.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.166][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:28.167][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:28.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.169][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.170][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:28.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:28.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.174][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:28.175][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:28.176][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.177][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.179][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:28.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:28.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.182][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:28.184][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:28.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.185][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.187][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:28.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:28.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.194][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:28.195][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:28.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.197][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.199][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:28.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:28.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.203][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:28.204][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:28.204][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.205][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.207][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:28.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:28.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.210][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:28.211][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:28.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.213][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.215][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:28.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:28.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.219][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:28.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:28.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:28.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:28.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.226][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:28.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:28.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:28.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:28.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.234][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:28.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:28.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:28.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:28.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.242][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:28.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:28.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.246][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:28.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:28.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.249][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:28.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:28.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.253][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:28.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:28.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:28.257][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-08-31 20:31:28.258][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-08-31 20:31:28.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-08-31 20:31:28.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-08-31 20:31:28.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-08-31 20:31:28.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-08-31 20:31:28.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-08-31 20:31:28.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-31 20:31:28.277][biodb::testThat]
biodb.INFO [2025-08-31 20:31:28.278][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-08-31 20:31:28.279][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:28.280][biodb::testThat]
biodb.TRACE[2025-08-31 20:31:28.283][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:28.284][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:28.285][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.286][ef$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:28.287][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-08-31 20:31:28.310][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:28.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:28.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.314][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:28.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:28.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.318][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:28.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:28.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:28.329][function(conn, opt)] With value "squalene".
biodb.DEBUG[2025-08-31 20:31:28.333][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-08-31 20:31:28.352][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:28.368][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-08-31 20:31:28.369][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:28.370][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-08-31 20:31:28.393][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".
biodb.DEBUG[2025-08-31 20:31:28.396][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:28.398][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-31 20:31:28.399][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:28.401][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-31 20:31:28.402][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-08-31 20:31:28.413][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:28.414][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:28.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.416][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.417][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:28.418][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:28.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.419][ef$get] fields variable is a list.
biodb.INFO [2025-08-31 20:31:28.423][biodb::testThat]
biodb.INFO [2025-08-31 20:31:28.424][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-08-31 20:31:28.425][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:28.426][biodb::testThat]
biodb.TRACE[2025-08-31 20:31:28.453][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:28.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:28.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.457][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:28.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:28.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.461][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:28.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:28.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:28.517][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".
biodb.DEBUG[2025-08-31 20:31:28.520][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:28.521][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-31 20:31:28.523][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:28.524][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.INFO [2025-08-31 20:31:28.538][biodb::testThat]
biodb.INFO [2025-08-31 20:31:28.539][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-08-31 20:31:28.540][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:28.541][biodb::testThat]
biodb.TRACE[2025-08-31 20:31:28.560][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:28.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:28.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.568][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:28.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:28.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.572][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:28.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:28.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.575][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.576][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:28.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:28.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:28.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:28.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:28.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:28.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.587][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-31 20:31:28.588][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-31 20:31:28.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.591][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-31 20:31:28.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-31 20:31:28.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.595][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-31 20:31:28.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-31 20:31:28.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.599][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-31 20:31:28.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-31 20:31:28.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.620][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:28.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:28.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.624][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:28.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:28.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.628][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:28.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:28.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.632][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:28.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:28.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:28.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:28.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.639][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:28.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:28.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.643][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-31 20:31:28.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-31 20:31:28.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.647][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-08-31 20:31:28.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-08-31 20:31:28.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.651][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-08-31 20:31:28.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-08-31 20:31:28.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:28.655][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-08-31 20:31:28.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-08-31 20:31:28.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:28.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-31 20:31:28.663][biodb::testThat]
biodb.INFO [2025-08-31 20:31:28.664][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-08-31 20:31:28.665][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:28.666][biodb::testThat]
biodb.INFO [2025-08-31 20:31:28.673][biodb::testThat]
biodb.INFO [2025-08-31 20:31:28.674][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-08-31 20:31:28.675][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:28.676][biodb::testThat]
biodb.INFO [2025-08-31 20:31:28.683][biodb::testThat]
biodb.INFO [2025-08-31 20:31:28.684][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-08-31 20:31:28.685][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:28.686][biodb::testThat]
biodb.DEBUG[2025-08-31 20:31:28.693][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
biodb.DEBUG[2025-08-31 20:31:29.271][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440.
biodb.INFO [2025-08-31 20:31:30.309][biodb::testThat]
biodb.INFO [2025-08-31 20:31:30.310][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-08-31 20:31:30.311][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:30.312][biodb::testThat]
biodb.DEBUG[2025-08-31 20:31:30.670][getUrlContent] Use RCurl for downloading content of URL https://www.ebi.ac.uk/chebi/displayImage.do?defaultImage=true&imageIndex=0&chebiId=15440&dimensions=400.
biodb.TRACE[2025-08-31 20:31:31.021][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:31.022][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:31.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.024][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.025][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:31.026][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:31.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.028][ef$get] fields variable is a list.
biodb.INFO [2025-08-31 20:31:31.030][biodb::testThat]
biodb.INFO [2025-08-31 20:31:31.031][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-08-31 20:31:31.032][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:31.033][biodb::testThat]
biodb.TRACE[2025-08-31 20:31:31.043][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:31.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:31.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.047][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:31.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:31.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.051][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:31.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:31.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:31.132][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".
biodb.DEBUG[2025-08-31 20:31:31.135][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:31.137][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-31 20:31:31.138][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:31.139][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-31 20:31:31.199][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".
biodb.DEBUG[2025-08-31 20:31:31.202][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:31.209][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-31 20:31:31.210][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:31.211][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.TRACE[2025-08-31 20:31:31.224][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-31 20:31:31.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-31 20:31:31.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.236][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.240][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.244][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.248][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.251][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:31.259][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".
biodb.DEBUG[2025-08-31 20:31:31.262][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:31.264][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-31 20:31:31.265][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:31.266][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-31 20:31:31.269][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:31.270][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:31.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:31.275][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:31.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:31.277][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:31.278][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[2025-08-31 20:31:31.279][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-08-31 20:31:31.329][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:31.331][cch$loadFileContent] Trying to load 1 files from cache: [1]: "192288".
biodb.TRACE[2025-08-31 20:31:31.332][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:31.334][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml".
biodb.DEBUG[2025-08-31 20:31:31.335][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:31.336][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:31.338][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:31.339][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:31.340][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:31.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:31.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:31.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:31.347][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:31.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:31.350][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.351][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.353][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.359][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:31.360][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:31.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.361][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.363][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:31.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:31.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.367][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:31.368][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:31.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.370][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.371][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:31.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:31.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.375][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:31.376][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:31.377][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.378][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.379][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:31.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:31.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.383][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:31.384][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:31.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.386][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.388][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:31.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:31.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.392][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:31.393][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:31.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.399][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.400][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:31.402][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.403][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.405][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:31.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.409][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:31.410][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:31.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.412][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.413][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:31.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:31.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.417][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:31.418][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:31.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.420][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.421][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:31.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:31.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.425][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:31.426][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:31.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.428][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.430][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:31.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:31.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.434][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:31.435][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:31.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.437][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.438][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:31.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:31.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.442][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:31.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:31.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.446][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:31.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:31.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.454][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:31.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:31.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.458][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.462][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.466][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.474][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.478][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:31.482][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-08-31 20:31:31.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.500][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.505][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:31.510][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".
biodb.DEBUG[2025-08-31 20:31:31.513][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:31.514][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-31 20:31:31.516][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:31.517][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-31 20:31:31.533][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:31.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:31.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:31.541][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:31.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:31.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:31.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:31.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.553][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:31.557][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:31.558][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:31.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:31.563][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:31.564][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:31.565][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:31.566][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[2025-08-31 20:31:31.567][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-08-31 20:31:31.568][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:31.569][cch$loadFileContent] Trying to load 1 files from cache: [1]: "209892".
biodb.TRACE[2025-08-31 20:31:31.571][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:31.573][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml".
biodb.DEBUG[2025-08-31 20:31:31.574][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:31.576][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:31.578][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:31.580][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:31.582][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:31.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:31.590][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:31.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:31.592][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:31.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:31.603][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.605][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.607][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.615][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:31.617][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:31.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.619][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.621][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:31.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:31.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.627][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:31.629][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:31.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.632][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.634][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:31.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:31.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.641][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:31.642][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:31.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.645][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.647][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:31.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:31.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.653][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:31.655][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:31.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.658][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.660][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:31.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:31.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.666][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:31.667][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:31.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.670][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.672][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:31.673][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.674][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.676][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.678][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:31.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.683][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:31.684][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:31.685][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.686][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.687][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:31.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:31.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.691][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:31.692][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:31.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.694][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.695][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:31.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:31.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.699][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:31.700][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:31.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.702][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.703][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:31.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:31.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.707][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:31.708][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:31.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.710][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.711][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:31.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:31.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.715][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:31.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:31.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.724][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:31.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:31.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.728][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.730][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.731][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:31.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:31.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.747][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.751][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.755][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:31.759][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-08-31 20:31:31.760][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.764][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.768][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:31.788][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".
biodb.DEBUG[2025-08-31 20:31:31.791][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:31.792][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-31 20:31:31.793][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:31.795][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-31 20:31:31.797][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:31.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:31.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:31.804][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:31.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:31.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:31.806][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:31.807][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.811][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.820][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:31.824][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:31.825][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:31.826][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:31.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:31.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:31.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:31.833][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[2025-08-31 20:31:31.834][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-08-31 20:31:31.835][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:31.837][cch$loadFileContent] Trying to load 1 files from cache: [1]: "26747".
biodb.TRACE[2025-08-31 20:31:31.838][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:31.840][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml".
biodb.DEBUG[2025-08-31 20:31:31.841][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:31.842][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:31.843][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:31.845][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:31.846][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:31.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:31.851][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:31.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:31.853][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:31.854][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:31.856][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.857][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.858][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.859][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.862][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.864][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:31.865][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:31.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.867][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.869][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:31.870][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:31.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.871][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.873][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:31.874][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:31.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.876][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.877][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:31.878][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:31.879][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.880][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.881][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:31.882][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:31.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.884][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.886][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:31.887][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.888][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.890][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:31.891][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:31.892][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.893][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.894][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:31.895][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:31.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.897][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.898][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:31.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:31.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.902][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:31.903][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:31.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.905][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.906][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:31.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:31.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.910][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:31.911][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:31.912][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.946][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.948][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:31.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:31.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.952][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:31.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:31.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.956][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.960][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:31.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:31.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.964][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.968][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.977][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.981][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:31.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:31.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:31.988][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-08-31 20:31:31.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.993][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:31.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:31.997][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:31.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.005][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:32.010][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:32.011][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:32.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:32.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:32.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:32.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:32.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:32.020][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-08-31 20:31:32.021][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:32.023][cch$loadFileContent] Trying to load 1 files from cache: [1]: "59285".
biodb.TRACE[2025-08-31 20:31:32.024][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:32.026][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml".
biodb.DEBUG[2025-08-31 20:31:32.027][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:32.028][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:32.029][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:32.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:32.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:32.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:32.037][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:32.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:32.039][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:32.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:32.042][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.043][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.050][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.055][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:32.056][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:32.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.058][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.060][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:32.061][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:32.062][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.063][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.064][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:32.065][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:32.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.067][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.068][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:32.069][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:32.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.071][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.073][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:32.074][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:32.075][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.075][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.077][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:32.078][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.080][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.081][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:32.082][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:32.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.084][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.085][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:32.086][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:32.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.088][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.090][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:32.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:32.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.094][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:32.095][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:32.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.097][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.098][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:32.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:32.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.102][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:32.104][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:32.104][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.105][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.111][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.119][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.123][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.131][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.135][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:32.153][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-08-31 20:31:32.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.158][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.163][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.167][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.171][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:32.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:32.176][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:32.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:32.181][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:32.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:32.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:32.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:32.185][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-08-31 20:31:32.186][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:32.188][cch$loadFileContent] Trying to load 1 files from cache: [1]: "75174".
biodb.TRACE[2025-08-31 20:31:32.189][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:32.191][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml".
biodb.DEBUG[2025-08-31 20:31:32.192][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:32.193][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:32.194][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:32.196][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:32.197][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:32.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:32.202][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:32.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:32.204][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:32.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:32.207][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.208][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.210][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.216][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:32.217][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:32.218][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.219][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.220][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:32.221][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:32.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.223][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.225][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:32.226][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:32.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.228][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.229][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:32.230][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:32.231][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.232][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.233][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:32.234][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:32.235][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.236][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.238][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:32.239][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.241][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.242][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:32.243][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:32.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.245][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.246][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:32.247][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:32.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.255][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.258][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:32.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:32.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.262][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:32.263][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:32.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.265][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.267][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:32.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:32.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.271][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:32.272][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:32.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.274][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.275][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.279][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.283][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.291][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.295][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.303][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.307][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:32.315][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-08-31 20:31:32.316][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.320][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.324][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.328][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.332][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:32.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:32.337][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:32.338][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:32.342][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:32.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:32.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:32.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:32.346][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-08-31 20:31:32.347][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:32.349][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15441".
biodb.TRACE[2025-08-31 20:31:32.350][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:32.356][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml".
biodb.DEBUG[2025-08-31 20:31:32.358][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:32.359][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:32.360][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:32.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:32.362][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:32.363][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:32.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:32.369][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:32.369][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:32.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:32.373][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.374][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.375][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.375][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.381][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:32.382][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:32.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.384][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.385][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:32.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:32.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.389][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:32.390][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:32.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.392][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.393][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:32.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:32.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.397][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:32.398][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:32.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.400][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.401][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:32.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:32.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.405][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:32.406][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:32.407][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.408][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.409][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:32.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:32.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.413][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:32.414][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:32.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.416][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.417][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:32.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:32.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.421][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:32.422][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.424][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.426][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:32.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.430][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:32.431][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:32.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.432][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:32.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:32.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.438][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:32.439][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:32.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.441][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.442][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:32.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:32.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.446][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:32.447][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:32.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.453][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.455][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:32.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:32.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.459][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:32.460][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:32.461][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.462][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.463][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:32.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:32.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.478][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.494][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:32.506][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-08-31 20:31:32.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.511][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.515][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:32.518][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:32.519][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:32.520][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:32.524][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:32.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:32.526][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:32.527][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:32.528][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-08-31 20:31:32.529][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:32.531][cch$loadFileContent] Trying to load 1 files from cache: [1]: "15442".
biodb.TRACE[2025-08-31 20:31:32.532][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:32.534][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml".
biodb.DEBUG[2025-08-31 20:31:32.535][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:32.536][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:32.537][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:32.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:32.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:32.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:32.545][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:32.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:32.551][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:32.552][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:32.554][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.555][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.557][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.558][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.562][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:32.564][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:32.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.565][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.567][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:32.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:32.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.571][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:32.572][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:32.573][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.573][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.575][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:32.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:32.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.579][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:32.580][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:32.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.582][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.583][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:32.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:32.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.587][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:32.588][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:32.589][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.590][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.591][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:32.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:32.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.595][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:32.596][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:32.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.598][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.599][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:32.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:32.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.603][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:32.604][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.606][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.607][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:32.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.611][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:32.612][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:32.613][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.614][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:32.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:32.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.619][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:32.620][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:32.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.622][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.624][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:32.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:32.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.628][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:32.629][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:32.630][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.631][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.632][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:32.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:32.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.636][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:32.637][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:32.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.639][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.640][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:32.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:32.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.648][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.652][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.660][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.664][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.668][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.676][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.684][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:32.688][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-08-31 20:31:32.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.691][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.692][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:32.700][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:32.701][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:32.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:32.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:32.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:32.708][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:32.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:32.710][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-08-31 20:31:32.711][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:32.713][cch$loadFileContent] Trying to load 1 files from cache: [1]: "57310".
biodb.TRACE[2025-08-31 20:31:32.714][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:32.716][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml".
biodb.DEBUG[2025-08-31 20:31:32.717][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:32.718][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:32.719][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:32.721][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:32.721][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:32.722][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:32.727][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:32.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:32.729][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:32.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:32.732][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.733][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.734][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.734][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.736][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.740][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:32.745][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:32.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.747][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.748][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:32.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:32.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.752][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:32.753][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:32.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.755][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.756][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:32.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:32.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.760][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:32.761][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:32.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.763][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.764][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:32.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:32.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.768][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:32.769][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:32.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.771][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.773][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:32.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:32.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.776][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:32.778][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:32.778][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.779][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.781][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:32.782][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.784][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.785][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:32.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.789][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:32.790][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:32.791][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.792][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:32.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:32.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.797][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:32.799][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:32.799][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.800][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.802][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:32.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:32.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.806][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:32.807][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:32.808][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.809][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.810][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:32.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:32.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.815][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:32.816][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:32.817][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.818][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.819][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:32.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:32.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.827][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.834][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.835][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:32.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.842][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.855][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.869][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:32.873][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-08-31 20:31:32.875][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.884][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:32.889][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:32.890][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:32.891][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:32.897][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:32.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:32.899][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:32.901][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[2025-08-31 20:31:32.902][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-08-31 20:31:32.903][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:32.905][cch$loadFileContent] Trying to load 1 files from cache: [1]: "66216".
biodb.TRACE[2025-08-31 20:31:32.907][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:32.909][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml".
biodb.DEBUG[2025-08-31 20:31:32.910][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:32.911][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:32.913][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:32.915][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:32.916][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:32.917][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:32.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:32.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:32.924][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:32.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:32.928][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.929][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.930][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.931][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:32.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:32.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.937][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:32.938][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:32.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.940][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.942][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:32.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:32.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.946][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:32.948][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:32.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.950][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.951][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:32.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:32.953][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.954][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.955][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:32.970][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:32.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.972][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.974][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:32.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:32.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.978][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:32.979][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:32.980][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.981][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.982][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:32.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:32.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.987][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:32.988][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:32.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.990][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.991][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:32.992][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.994][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.995][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:32.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:32.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:32.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:32.999][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.000][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.002][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.007][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:33.008][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:33.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.010][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.011][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:33.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:33.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.015][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:33.016][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:33.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.018][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.019][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:33.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:33.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.023][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:33.024][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:33.025][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.026][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.027][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:33.029][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:33.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.039][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.047][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.055][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.059][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.067][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:33.075][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-08-31 20:31:33.076][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.080][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.084][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:33.088][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:33.089][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:33.090][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:33.094][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:33.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:33.096][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:33.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:33.098][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-08-31 20:31:33.099][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:33.101][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70860".
biodb.TRACE[2025-08-31 20:31:33.102][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:33.103][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml".
biodb.DEBUG[2025-08-31 20:31:33.104][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:33.106][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:33.107][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:33.108][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:33.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:33.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:33.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:33.115][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:33.116][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:33.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:33.120][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.121][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.122][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.123][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.128][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:33.129][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:33.130][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.131][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.132][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:33.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:33.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.136][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:33.137][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:33.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.139][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.140][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:33.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:33.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.144][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:33.146][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:33.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.147][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.149][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:33.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:33.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.153][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:33.154][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:33.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.156][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.157][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:33.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:33.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.166][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:33.167][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:33.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.169][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.170][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:33.172][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.173][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.175][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:33.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.179][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.180][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.181][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.182][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.187][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:33.188][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:33.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.190][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.191][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:33.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:33.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.196][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:33.197][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:33.197][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.198][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.200][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:33.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:33.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.204][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:33.205][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:33.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.207][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.208][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:33.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:33.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.220][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.231][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.239][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:33.251][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-08-31 20:31:33.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:33.268][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:33.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:33.270][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:33.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:33.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:33.276][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:33.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:33.278][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-08-31 20:31:33.279][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:33.280][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70861".
biodb.TRACE[2025-08-31 20:31:33.282][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:33.283][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml".
biodb.DEBUG[2025-08-31 20:31:33.284][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:33.286][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:33.287][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:33.288][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:33.289][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:33.290][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:33.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:33.295][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:33.296][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:33.297][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:33.299][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.301][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.302][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.304][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.308][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:33.309][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:33.310][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.311][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.312][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:33.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:33.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.316][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:33.317][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:33.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.319][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.320][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:33.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:33.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.324][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:33.325][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:33.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.327][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.328][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:33.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:33.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.332][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:33.333][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:33.334][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.335][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.336][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:33.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:33.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.340][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:33.341][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:33.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.343][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.344][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:33.345][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.347][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.348][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:33.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.352][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.353][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.359][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.360][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.362][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.366][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:33.367][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:33.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.368][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.370][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:33.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:33.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.374][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:33.375][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:33.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.377][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.378][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:33.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:33.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.382][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:33.383][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:33.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.385][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.386][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:33.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:33.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.402][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.410][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.414][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.418][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.426][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:33.430][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-08-31 20:31:33.431][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:33.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:33.444][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:33.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:33.449][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:33.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:33.455][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:33.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:33.457][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-08-31 20:31:33.458][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:33.460][cch$loadFileContent] Trying to load 1 files from cache: [1]: "78662".
biodb.TRACE[2025-08-31 20:31:33.461][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:33.463][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml".
biodb.DEBUG[2025-08-31 20:31:33.464][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:33.465][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:33.466][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:33.468][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:33.469][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:33.469][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:33.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:33.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:33.476][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:33.477][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:33.479][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.480][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.482][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.487][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:33.488][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:33.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.490][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.491][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:33.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:33.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.495][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:33.496][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:33.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.498][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.499][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:33.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:33.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.503][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:33.504][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:33.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.506][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.507][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:33.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:33.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.511][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:33.512][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:33.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.514][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.515][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:33.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:33.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.519][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:33.520][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:33.521][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.522][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.524][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:33.525][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.526][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.528][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:33.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.532][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.533][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.535][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.536][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.540][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:33.541][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:33.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.543][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.544][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:33.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:33.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.553][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:33.554][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:33.555][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.556][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.557][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:33.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:33.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.561][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:33.562][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:33.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.564][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.565][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:33.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:33.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.569][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.577][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.581][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.585][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.589][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.592][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.604][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:33.608][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-08-31 20:31:33.609][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.613][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.617][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.620][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:33.621][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:33.622][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:33.623][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:33.627][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:33.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:33.629][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:33.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:33.631][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-08-31 20:31:33.632][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:33.634][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85084".
biodb.TRACE[2025-08-31 20:31:33.635][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:33.637][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml".
biodb.DEBUG[2025-08-31 20:31:33.638][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:33.639][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:33.640][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:33.642][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:33.642][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:33.643][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:33.652][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:33.653][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:33.654][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:33.655][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:33.657][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.658][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.660][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.661][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.665][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:33.666][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:33.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.668][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.669][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:33.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:33.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.673][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:33.674][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:33.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.676][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.678][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:33.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:33.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.682][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:33.683][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:33.684][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.685][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.686][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:33.687][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:33.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.689][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.690][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:33.691][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:33.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.693][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.694][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:33.695][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.697][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.699][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:33.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.703][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.704][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.706][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.707][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.711][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:33.712][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:33.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.714][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.715][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:33.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:33.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.720][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:33.721][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:33.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.722][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.724][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:33.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:33.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.728][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:33.729][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:33.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.731][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.736][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.737][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.738][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.740][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.749][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.765][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.769][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:33.776][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-08-31 20:31:33.778][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.781][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.785][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:33.789][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:33.790][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:33.791][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:33.796][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:33.796][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:33.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:33.798][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[2025-08-31 20:31:33.799][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-08-31 20:31:33.800][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:33.802][cch$loadFileContent] Trying to load 1 files from cache: [1]: "85086".
biodb.TRACE[2025-08-31 20:31:33.803][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:33.805][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml".
biodb.DEBUG[2025-08-31 20:31:33.806][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:33.807][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:33.808][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:33.810][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:33.811][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:33.812][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:33.816][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:33.817][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:33.818][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:33.819][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:33.821][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.822][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.824][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.825][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.829][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:33.830][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:33.831][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.832][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.833][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:33.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:33.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.837][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:33.843][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:33.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.845][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.847][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:33.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:33.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.851][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:33.852][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:33.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.853][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.855][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:33.856][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:33.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.858][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.859][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:33.860][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:33.861][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.862][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.863][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:33.864][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.865][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.866][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.867][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:33.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.871][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.872][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.873][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.874][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:33.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.879][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:33.880][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:33.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.882][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.884][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:33.885][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:33.886][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.888][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:33.889][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:33.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.891][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.892][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:33.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:33.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.896][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:33.897][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:33.898][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.899][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.900][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:33.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.941][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:33.945][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-08-31 20:31:33.947][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.949][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.952][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:33.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:33.958][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:33.959][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:33.960][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:33.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:33.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:33.967][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:33.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:33.969][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-08-31 20:31:33.970][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:33.971][cch$loadFileContent] Trying to load 1 files from cache: [1]: "88123".
biodb.TRACE[2025-08-31 20:31:33.972][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:33.974][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml".
biodb.DEBUG[2025-08-31 20:31:33.975][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:33.976][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:33.978][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:33.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:33.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:33.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:33.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:33.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:33.987][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:33.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:33.991][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.992][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.994][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.995][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:33.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:33.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:33.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:33.999][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:34.000][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:34.001][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.002][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.004][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:34.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:34.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.008][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:34.009][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:34.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.011][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.012][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:34.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:34.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.016][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:34.017][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:34.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.019][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.021][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:34.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:34.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.025][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.026][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.028][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.029][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.033][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:34.034][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:34.044][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.045][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.047][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:34.048][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.050][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.051][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:34.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.055][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.056][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.058][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.059][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.063][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:34.064][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:34.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.066][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.068][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:34.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:34.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.072][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:34.073][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:34.074][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.075][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.077][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:34.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:34.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.081][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:34.082][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:34.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.084][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.085][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:34.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:34.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.093][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.097][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.109][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.117][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.121][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.125][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:34.129][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-08-31 20:31:34.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.134][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.143][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:34.148][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:34.149][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:34.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:34.155][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:34.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:34.157][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:34.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:34.159][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-08-31 20:31:34.160][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:34.162][cch$loadFileContent] Trying to load 1 files from cache: [1]: "134117".
biodb.TRACE[2025-08-31 20:31:34.163][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:34.165][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml".
biodb.DEBUG[2025-08-31 20:31:34.166][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:34.167][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:34.168][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:34.170][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:34.171][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:34.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:34.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:34.178][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:34.179][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:34.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:34.182][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.183][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.184][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.185][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.191][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:34.192][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:34.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.194][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.195][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:34.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:34.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.200][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:34.201][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:34.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.203][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.204][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:34.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:34.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.208][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:34.210][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:34.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.212][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.213][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:34.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:34.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.217][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.218][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.220][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.222][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.226][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:34.227][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:34.228][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.229][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.230][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:34.231][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.233][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.234][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:34.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.239][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.240][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.242][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.250][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.253][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:34.254][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:34.255][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.256][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.257][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:34.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:34.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.261][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:34.262][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:34.263][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.264][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.265][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:34.266][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:34.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.269][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:34.270][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:34.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.272][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.274][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:34.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:34.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.278][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.282][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.286][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.297][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.301][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.305][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.309][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.313][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.316][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:34.317][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-08-31 20:31:34.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.322][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:34.330][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:34.331][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:34.332][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:34.336][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:34.337][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:34.338][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:34.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:34.340][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-08-31 20:31:34.341][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:34.348][cch$loadFileContent] Trying to load 1 files from cache: [1]: "138307".
biodb.TRACE[2025-08-31 20:31:34.349][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:34.351][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml".
biodb.DEBUG[2025-08-31 20:31:34.352][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:34.354][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:34.355][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:34.356][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:34.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:34.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:34.363][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:34.364][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:34.365][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:34.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:34.368][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.369][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.371][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.376][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:34.377][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:34.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.379][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.380][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:34.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:34.382][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.383][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.384][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:34.385][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:34.386][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.387][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.389][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:34.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:34.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.393][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:34.394][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:34.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.396][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.397][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:34.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:34.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.401][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.402][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.403][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.404][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.405][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.409][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:34.410][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:34.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.412][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.413][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:34.414][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.416][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.417][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:34.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.421][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.422][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.424][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.426][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.430][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:34.431][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:34.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.432][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.434][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:34.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:34.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.438][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:34.439][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:34.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.441][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.446][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:34.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:34.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.451][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:34.452][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:34.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.454][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.455][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:34.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:34.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.459][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.463][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.467][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.479][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.480][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.491][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:34.499][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-08-31 20:31:34.500][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.504][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.508][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:34.512][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:34.513][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:34.514][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:34.518][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:34.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:34.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:34.521][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[2025-08-31 20:31:34.522][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-08-31 20:31:34.523][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:34.525][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176803".
biodb.TRACE[2025-08-31 20:31:34.526][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:34.528][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml".
biodb.DEBUG[2025-08-31 20:31:34.529][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:34.530][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:34.531][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:34.533][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:34.534][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:34.535][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:34.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:34.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:34.546][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:34.547][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:34.550][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.551][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.552][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.553][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.554][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.558][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:34.559][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:34.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.561][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.562][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:34.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:34.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.566][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:34.567][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:34.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.569][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.570][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:34.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:34.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.574][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:34.575][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:34.576][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.577][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.578][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:34.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:34.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.582][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.583][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.584][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.585][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.586][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.590][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:34.591][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:34.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.593][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.594][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:34.595][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.596][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.597][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.598][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:34.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.602][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.603][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.604][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.605][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.610][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:34.611][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:34.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.613][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.614][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:34.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:34.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.618][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:34.619][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:34.620][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.621][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.622][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:34.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:34.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.626][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:34.627][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:34.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.629][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.630][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:34.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:34.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.647][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.651][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.652][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.655][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.674][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:34.678][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-08-31 20:31:34.679][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.687][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:34.691][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:34.692][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:34.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:34.697][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:34.698][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:34.699][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:34.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:34.701][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-08-31 20:31:34.702][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:34.704][cch$loadFileContent] Trying to load 1 files from cache: [1]: "176962".
biodb.TRACE[2025-08-31 20:31:34.705][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:34.706][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml".
biodb.DEBUG[2025-08-31 20:31:34.708][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:34.709][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:34.710][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:34.711][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:34.712][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:34.713][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:34.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:34.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:34.719][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:34.720][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:34.722][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.723][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.725][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.731][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:34.732][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:34.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.738][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.739][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:34.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:34.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.744][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:34.745][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:34.746][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.747][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.748][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:34.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:34.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.752][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:34.753][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:34.754][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.755][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.756][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:34.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:34.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.760][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.761][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.762][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.763][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.764][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.768][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:34.769][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:34.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.771][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.772][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:34.773][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.775][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.776][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:34.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.780][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.781][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.783][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.784][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.788][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:34.789][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:34.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.791][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.792][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:34.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:34.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.796][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:34.797][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:34.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.799][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.800][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:34.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:34.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.804][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:34.805][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:34.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.807][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.808][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:34.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:34.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.812][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.816][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.820][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.823][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.824][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.828][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.845][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:34.857][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-08-31 20:31:34.858][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.862][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.865][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.867][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.868][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:34.869][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:34.870][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:34.871][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:34.876][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:34.876][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:34.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:34.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:34.879][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-08-31 20:31:34.880][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:34.882][cch$loadFileContent] Trying to load 1 files from cache: [1]: "198655".
biodb.TRACE[2025-08-31 20:31:34.883][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:34.885][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml".
biodb.DEBUG[2025-08-31 20:31:34.886][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:34.887][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:34.888][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:34.890][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:34.891][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:34.892][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:34.896][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:34.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:34.898][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:34.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:34.901][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.902][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.904][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.905][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:34.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:34.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.909][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:34.911][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:34.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.912][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.914][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:34.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:34.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.918][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:34.919][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:34.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.921][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.922][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:34.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:34.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.926][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:34.932][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:34.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.934][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.935][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:34.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:34.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.939][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.940][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.941][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.942][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.943][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:34.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.947][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:34.948][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:34.949][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.950][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.951][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:34.953][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.954][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.956][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:34.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:34.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.960][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.961][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.962][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.964][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:34.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.967][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.968][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:34.969][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:34.970][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.971][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.972][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:34.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:34.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.975][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.976][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:34.977][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:34.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.979][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.980][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:34.981][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:34.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.984][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:34.985][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:34.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.987][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.988][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:34.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:34.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.992][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:34.996][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:34.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:34.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.000][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:35.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:35.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:35.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:35.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.008][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:35.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:35.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.012][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:35.013][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:35.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.016][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:35.017][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:35.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.020][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:35.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:35.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.028][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:35.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:35.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.033][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:35.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:35.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.036][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-08-31 20:31:35.038][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.042][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.045][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.050][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.051][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.055][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.056][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.057][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.058][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[2025-08-31 20:31:35.059][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-08-31 20:31:35.060][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:35.062][cch$loadFileContent] Trying to load 1 files from cache: [1]: "215045".
biodb.TRACE[2025-08-31 20:31:35.063][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:35.065][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml".
biodb.DEBUG[2025-08-31 20:31:35.066][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:35.067][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:35.068][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:35.070][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.070][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.071][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.076][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.077][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.078][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:35.081][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:35.082][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:35.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.084][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.085][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:35.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:35.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.089][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:35.090][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:35.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.092][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.093][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:35.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:35.095][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.096][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.097][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:35.098][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:35.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.100][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.102][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:35.103][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:35.104][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.106][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:35.107][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:35.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.108][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.110][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:35.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:35.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.114][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:35.115][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:35.116][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.117][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.118][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:35.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:35.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.127][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:35.128][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:35.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.130][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.131][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:35.132][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.134][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.135][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:35.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.139][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:35.141][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:35.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.142][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:35.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:35.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.148][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:35.149][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:35.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.150][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.152][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:35.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:35.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.156][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:35.157][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:35.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.159][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.160][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:35.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:35.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.164][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:35.165][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:35.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.167][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.168][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:35.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:35.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.172][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:35.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:35.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.176][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:35.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:35.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.180][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:35.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:35.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.184][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:35.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:35.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:35.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:35.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:35.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:35.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:35.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:35.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:35.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:35.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.203][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:35.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:35.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:35.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:35.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.211][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-08-31 20:31:35.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.221][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.223][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.245][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".
biodb.DEBUG[2025-08-31 20:31:35.248][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:35.250][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-31 20:31:35.251][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:35.252][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-31 20:31:35.255][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.256][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.257][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.262][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.263][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.263][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.264][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:35.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.277][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.278][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.279][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.283][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.284][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.285][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.286][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:35.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.290][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.291][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.295][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.299][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.303][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.307][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.308][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.309][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.321][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:35.323][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.327][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.335][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.339][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.350][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.350][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.351][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.352][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:35.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.357][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.361][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.369][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.374][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.375][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.380][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.380][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.381][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:35.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.387][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.391][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.395][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.396][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.401][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.403][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:35.405][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.408][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.413][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.417][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.422][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.423][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.431][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.434][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.436][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:35.437][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.443][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.449][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.457][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.468][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:35.471][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.477][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.483][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.489][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.491][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.500][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.502][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:35.505][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.510][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.514][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.517][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.524][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.525][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.526][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[2025-08-31 20:31:35.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.531][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.552][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.553][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.TRACE[2025-08-31 20:31:35.554][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.558][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.562][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.565][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.566][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.572][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.573][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.574][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.TRACE[2025-08-31 20:31:35.575][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.579][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.583][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.586][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.593][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.599][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:35.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.607][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.611][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.626][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:35.628][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.633][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.637][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.665][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.667][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.668][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:35.669][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.678][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.682][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.683][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.684][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.689][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.691][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:35.693][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.697][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.702][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.706][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.707][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.712][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:35.716][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.720][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.728][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.729][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.735][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.736][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.737][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.738][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:35.739][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.743][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.757][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.761][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.763][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:35.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.773][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.783][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.784][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.785][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.786][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:35.787][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.791][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.795][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:35.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:35.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:35.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.814][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.815][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:35.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:35.817][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.819][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:35.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:35.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:35.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:35.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.827][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:35.828][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:35.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:35.860][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".
biodb.DEBUG[2025-08-31 20:31:35.864][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:35.865][cch$loadFileContent] Trying to load 1 files from cache: [1]: "c5171beada848a87ef2ffa10427d9be3".
biodb.TRACE[2025-08-31 20:31:35.866][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:35.868][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/c5171beada848a87ef2ffa10427d9be3.content".
biodb.DEBUG[2025-08-31 20:31:35.871][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".
biodb.DEBUG[2025-08-31 20:31:35.874][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:35.875][cch$loadFileContent] Trying to load 1 files from cache: [1]: "750e63ff76a843f016511fa71c89113e".
biodb.TRACE[2025-08-31 20:31:35.877][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:35.878][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/750e63ff76a843f016511fa71c89113e.content".
biodb.DEBUG[2025-08-31 20:31:35.880][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.881][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.887][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.889][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:35.890][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-08-31 20:31:35.891][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:35.893][cch$loadFileContent] Trying to load 1 files from cache: [1]: "4648".
biodb.TRACE[2025-08-31 20:31:35.894][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:35.896][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml".
biodb.DEBUG[2025-08-31 20:31:35.898][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:35.899][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:35.901][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:35.904][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:35.905][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:35.907][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:35.914][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:35.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:35.917][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:35.918][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:35.922][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:35.924][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:35.925][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.927][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:35.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:35.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.936][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:35.937][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:35.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.940][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.942][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:35.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:35.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.949][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:35.950][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:35.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.953][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.955][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:35.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:35.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.962][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:35.963][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:35.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.973][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.975][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:35.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:35.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.982][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:35.984][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:35.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.986][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.988][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:35.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:35.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:35.995][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:35.996][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:35.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:35.999][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.001][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:36.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:36.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.008][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:36.009][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:36.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.012][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.014][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:36.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:36.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.020][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.021][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.024][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.032][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:36.033][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:36.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.036][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.038][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:36.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:36.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.045][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:36.047][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:36.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.050][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.051][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:36.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:36.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.055][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:36.056][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:36.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.058][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.059][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:36.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:36.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.064][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:36.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:36.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.067][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:36.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:36.069][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.070][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.071][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:36.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:36.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:36.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:36.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.079][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:36.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:36.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:36.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:36.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:36.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:36.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:36.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:36.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:36.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:36.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:36.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:36.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.108][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-08-31 20:31:36.109][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.113][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.117][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.119][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.121][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.122][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.123][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.127][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.128][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.129][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.130][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:36.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.135][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.143][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:36.153][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-08-31 20:31:36.154][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:36.156][cch$loadFileContent] Trying to load 1 files from cache: [1]: "62447".
biodb.TRACE[2025-08-31 20:31:36.157][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:36.158][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml".
biodb.DEBUG[2025-08-31 20:31:36.159][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:36.161][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:36.162][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:36.163][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.164][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.165][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:36.175][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:36.176][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:36.177][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.178][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.179][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:36.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:36.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.183][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:36.184][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:36.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.368][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.370][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:36.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:36.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.374][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:36.375][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:36.376][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.377][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.378][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:36.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:36.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.382][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:36.383][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:36.384][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.385][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.386][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:36.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:36.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.390][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:36.391][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:36.392][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.393][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.394][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:36.395][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:36.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.398][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:36.399][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:36.400][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.401][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.402][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:36.403][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:36.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.405][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.406][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:36.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:36.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.410][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.411][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.412][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.413][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.414][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.418][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:36.419][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:36.419][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.420][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.422][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:36.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:36.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.426][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:36.427][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:36.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.428][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.430][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:36.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:36.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.433][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:36.434][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:36.435][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.436][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.437][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:36.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:36.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:36.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:36.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.445][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:36.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:36.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.449][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:36.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:36.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:36.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:36.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.456][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:36.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:36.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:36.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:36.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.464][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:36.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:36.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:36.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:36.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:36.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:36.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:36.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:36.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.480][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-08-31 20:31:36.481][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.485][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.490][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.512][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".
biodb.DEBUG[2025-08-31 20:31:36.515][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:36.517][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-31 20:31:36.519][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:36.520][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-31 20:31:36.523][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.524][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.530][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.532][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.533][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:36.534][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.548][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.549][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.550][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.555][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.558][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.TRACE[2025-08-31 20:31:36.559][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.564][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.569][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.573][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.574][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.582][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.583][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.584][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.589][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.590][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.591][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:36.593][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.595][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.598][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.602][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.606][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.610][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.611][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.615][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.616][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.622][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.623][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:36.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.631][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.636][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.640][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.644][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.649][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.656][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:36.660][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.665][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.669][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.674][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.675][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.680][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.682][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:36.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.689][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.694][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.698][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.699][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.700][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.705][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.707][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.708][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[2025-08-31 20:31:36.709][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.714][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.723][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.724][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.725][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.730][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.732][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:36.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.747][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.750][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.751][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.756][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.758][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:36.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.768][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.771][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.772][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.778][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.779][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.780][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:36.781][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.785][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.793][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.794][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.799][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.800][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.801][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:36.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.810][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:36.824][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.828][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.832][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.835][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.841][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.842][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.843][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:36.845][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.847][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.848][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.863][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.865][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:36.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.875][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.878][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.879][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.880][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.885][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.886][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.887][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[2025-08-31 20:31:36.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.892][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.896][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.900][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.901][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.902][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.906][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.908][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:36.910][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.914][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.916][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.918][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.921][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.922][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.923][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.927][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.929][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:36.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.935][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.949][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.950][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:36.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.960][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.964][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.965][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.966][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:36.974][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:36.985][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:36.986][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:36.987][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:36.991][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:36.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:36.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:36.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:36.995][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:36.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:36.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:36.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.022][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".
biodb.DEBUG[2025-08-31 20:31:37.025][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:37.026][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b9623d99e42a57d0f12e83910c2ffbf2".
biodb.TRACE[2025-08-31 20:31:37.027][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:37.028][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b9623d99e42a57d0f12e83910c2ffbf2.content".
biodb.DEBUG[2025-08-31 20:31:37.031][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.032][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.037][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.039][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.045][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.052][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.053][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.053][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.054][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.059][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.060][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.060][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.062][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.066][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.067][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.070][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.074][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.082][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.086][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.087][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.092][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.093][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.094][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.095][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[2025-08-31 20:31:37.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.100][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.102][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.103][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.107][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.110][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.111][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.115][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.116][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.116][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.121][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.128][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.132][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.136][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.140][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.143][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.144][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.145][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.149][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.151][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.153][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.165][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.165][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.166][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.170][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.172][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.173][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.TRACE[2025-08-31 20:31:37.174][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.178][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.182][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.186][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.193][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.199][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.203][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.208][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.213][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.214][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.215][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.216][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.TRACE[2025-08-31 20:31:37.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.220][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.228][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.250][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.251][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.251][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.258][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.260][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.264][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.268][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.272][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.273][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.277][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.278][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.279][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.280][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.281][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.285][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.289][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.293][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.293][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.294][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.299][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.300][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.301][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.306][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.310][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.314][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.315][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.320][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.322][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.324][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.327][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.335][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.336][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.341][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.342][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.343][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.345][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.352][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.356][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.357][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.358][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.362][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.363][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.364][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.365][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.366][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.370][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.374][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.384][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.386][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[2025-08-31 20:31:37.387][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.391][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.399][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.399][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.400][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.405][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.405][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.407][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.TRACE[2025-08-31 20:31:37.408][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.412][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.420][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.424][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.424][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.429][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.431][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.433][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.437][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.444][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.445][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.446][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.450][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.451][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.452][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.454][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.457][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.461][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.465][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.466][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.471][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.472][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.474][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.477][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.482][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.483][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.484][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.497][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-31 20:31:37.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-31 20:31:37.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-31 20:31:37.507][biodb::testThat]
biodb.INFO [2025-08-31 20:31:37.508][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-08-31 20:31:37.509][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:37.509][biodb::testThat]
biodb.TRACE[2025-08-31 20:31:37.512][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-31 20:31:37.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-31 20:31:37.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.516][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.520][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.524][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.528][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.534][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.535][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.536][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.541][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:37.545][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".
biodb.DEBUG[2025-08-31 20:31:37.548][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:37.549][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-31 20:31:37.551][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:37.552][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-31 20:31:37.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.556][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.560][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.561][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.562][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.562][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.TRACE[2025-08-31 20:31:37.564][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.567][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.568][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.576][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".
biodb.DEBUG[2025-08-31 20:31:37.579][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:37.580][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-31 20:31:37.581][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:37.582][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-31 20:31:37.585][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.586][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.591][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.592][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.593][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.593][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.595][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.598][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.599][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.602][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.606][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.607][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.608][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.612][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.614][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.616][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.620][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.624][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:37.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.628][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-31 20:31:37.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.635][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.637][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.643][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.647][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:37.647][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 20:31:37.648][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 20:31:37.649][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 20:31:37.650][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:37.651][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.652][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.654][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.655][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.656][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.658][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.659][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:37.660][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:37.661][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.662][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.663][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.664][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 20:31:37.665][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.669][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.673][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.685][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-31 20:31:37.686][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.687][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.692][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.696][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.700][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.704][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:37.705][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 20:31:37.706][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 20:31:37.707][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 20:31:37.707][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:37.708][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.709][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.710][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.711][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.712][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.713][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.714][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.715][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.716][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:37.717][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:37.718][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.719][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.720][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.721][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.722][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 20:31:37.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.726][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.728][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.734][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-31 20:31:37.736][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.736][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.745][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.753][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.757][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:37.758][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 20:31:37.759][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 20:31:37.760][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 20:31:37.761][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:37.762][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.763][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.764][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.765][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.766][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.767][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.768][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.769][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:37.770][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:37.771][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.772][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.773][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.774][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.775][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 20:31:37.776][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.779][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:37.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.787][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-31 20:31:37.788][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-31 20:31:37.789][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-31 20:31:37.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.805][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.809][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.862][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.863][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.868][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.870][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:37.874][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".
biodb.DEBUG[2025-08-31 20:31:37.877][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:37.878][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-08-31 20:31:37.879][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:37.881][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-08-31 20:31:37.883][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".
biodb.DEBUG[2025-08-31 20:31:37.886][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:37.888][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-08-31 20:31:37.889][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:37.890][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-08-31 20:31:37.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.893][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.894][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.904][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.905][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.912][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.913][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.917][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.918][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.923][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.924][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.925][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.926][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[2025-08-31 20:31:37.927][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.931][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.935][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.936][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:37.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:37.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:37.944][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:37.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:37.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:37.947][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:37.948][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:37.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:37.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:37.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:37.982][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-31 20:31:38.005][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.006][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.007][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.011][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.012][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.013][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.014][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.TRACE[2025-08-31 20:31:38.015][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.023][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.024][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 20:31:38.025][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 20:31:38.026][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 20:31:38.027][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.028][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.029][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.030][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.031][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.032][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.033][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.034][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.035][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.036][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.037][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.038][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.039][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.040][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.041][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 20:31:38.042][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.046][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.054][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-31 20:31:38.055][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.056][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.066][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.067][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.068][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:38.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.085][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.108][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.109][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 20:31:38.110][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 20:31:38.111][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 20:31:38.111][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.112][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.113][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.115][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.116][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.117][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.119][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.120][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.130][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.131][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.132][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.133][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.134][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 20:31:38.135][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.139][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.143][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.147][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-31 20:31:38.148][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.149][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.150][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.157][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.158][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.159][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.161][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:38.162][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.174][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.176][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 20:31:38.177][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 20:31:38.179][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 20:31:38.180][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.182][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.183][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.185][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.186][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.188][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.189][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.192][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.194][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.195][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.197][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.198][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.201][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.203][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 20:31:38.204][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.210][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.223][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-31 20:31:38.224][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-31 20:31:38.226][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-31 20:31:38.238][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-31 20:31:38.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-31 20:31:38.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-31 20:31:38.249][biodb::testThat]
biodb.INFO [2025-08-31 20:31:38.250][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-08-31 20:31:38.251][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:38.253][biodb::testThat]
biodb.TRACE[2025-08-31 20:31:38.257][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-31 20:31:38.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-31 20:31:38.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.262][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.270][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.274][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:38.280][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.281][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.282][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.286][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:38.292][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".
biodb.DEBUG[2025-08-31 20:31:38.295][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:38.296][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-31 20:31:38.297][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:38.299][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-31 20:31:38.301][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.302][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.302][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.307][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.308][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.309][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.309][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:38.311][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.314][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:38.324][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".
biodb.DEBUG[2025-08-31 20:31:38.328][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:38.330][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-31 20:31:38.332][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:38.334][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-31 20:31:38.337][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.347][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.349][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.351][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:38.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.359][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.365][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:38.369][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.370][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.370][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.375][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.377][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.378][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:38.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.387][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:38.391][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-31 20:31:38.392][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.399][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.401][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:38.403][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.411][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.412][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 20:31:38.413][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 20:31:38.413][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 20:31:38.414][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.415][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.417][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.418][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.419][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.421][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.421][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.422][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.423][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.424][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.425][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.426][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.428][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.429][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 20:31:38.430][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.434][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.447][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-31 20:31:38.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.449][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.450][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.454][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.455][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.456][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:38.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.462][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.465][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.466][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 20:31:38.467][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 20:31:38.468][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 20:31:38.469][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.470][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.471][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.473][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.474][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.475][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.476][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.477][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.478][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.479][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.480][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.481][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.482][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.483][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 20:31:38.484][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.491][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.496][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-31 20:31:38.497][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.497][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.498][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.502][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.503][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.504][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.505][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.TRACE[2025-08-31 20:31:38.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.514][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.515][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 20:31:38.516][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 20:31:38.516][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 20:31:38.517][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.518][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.519][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.521][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.522][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.523][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.525][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.526][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.527][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.528][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.529][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.530][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.531][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 20:31:38.532][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.536][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.540][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.544][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-31 20:31:38.545][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-31 20:31:38.546][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-31 20:31:38.554][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.562][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.563][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.564][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.565][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.566][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:38.571][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.572][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.577][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.578][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.580][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.DEBUG[2025-08-31 20:31:38.583][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".
biodb.DEBUG[2025-08-31 20:31:38.586][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:38.587][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-08-31 20:31:38.588][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:38.589][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-08-31 20:31:38.593][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".
biodb.DEBUG[2025-08-31 20:31:38.596][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:38.597][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-08-31 20:31:38.598][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:38.599][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-08-31 20:31:38.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.603][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.608][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:38.612][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.613][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.614][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.615][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:38.623][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.630][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.631][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:38.633][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.637][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:38.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.651][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.652][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.653][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.654][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:38.655][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.663][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:38.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:38.667][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-31 20:31:38.668][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.669][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.675][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.676][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.676][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.677][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:38.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.682][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.686][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.687][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 20:31:38.688][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 20:31:38.689][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 20:31:38.690][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.691][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.692][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.694][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.695][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.696][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.698][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.699][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.700][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.701][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.702][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.702][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.703][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.704][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 20:31:38.705][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.709][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.713][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.716][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.717][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-31 20:31:38.718][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.719][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.724][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.726][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.727][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:38.728][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.732][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.733][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.736][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.737][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 20:31:38.738][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 20:31:38.739][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 20:31:38.740][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.741][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.742][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.744][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.745][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.746][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.748][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.749][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.750][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.751][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.752][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.753][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.754][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 20:31:38.755][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.768][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-31 20:31:38.769][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.770][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.771][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.777][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:38.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.788][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.791][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.792][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 20:31:38.793][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 20:31:38.794][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 20:31:38.795][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.796][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.797][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.798][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.799][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.800][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.801][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.803][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.804][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.805][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.805][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.806][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.807][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.808][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.809][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 20:31:38.810][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.811][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.812][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.813][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.814][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.822][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-31 20:31:38.823][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-31 20:31:38.824][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-31 20:31:38.831][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-31 20:31:38.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-31 20:31:38.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-31 20:31:38.838][biodb::testThat]
biodb.INFO [2025-08-31 20:31:38.839][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-08-31 20:31:38.840][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:38.841][biodb::testThat]
biodb.TRACE[2025-08-31 20:31:38.844][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-08-31 20:31:38.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-08-31 20:31:38.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.848][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.855][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:38.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.868][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.874][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:38.878][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".
biodb.DEBUG[2025-08-31 20:31:38.881][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:38.882][cch$loadFileContent] Trying to load 1 files from cache: [1]: "dabc9e8530050c4ceebbaec76743bcf1".
biodb.TRACE[2025-08-31 20:31:38.883][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:38.885][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/dabc9e8530050c4ceebbaec76743bcf1.content".
biodb.DEBUG[2025-08-31 20:31:38.887][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.888][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.889][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.893][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:38.897][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.901][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.905][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:38.909][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".
biodb.DEBUG[2025-08-31 20:31:38.912][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:38.914][cch$loadFileContent] Trying to load 1 files from cache: [1]: "41b7f9723242a79cfe14bebd91dbb5b6".
biodb.TRACE[2025-08-31 20:31:38.915][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:38.916][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/41b7f9723242a79cfe14bebd91dbb5b6.content".
biodb.DEBUG[2025-08-31 20:31:38.918][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.925][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.925][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.926][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.927][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:38.928][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.932][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.936][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:38.940][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.941][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.942][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.946][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.948][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:38.950][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.958][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:38.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:38.962][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-31 20:31:38.964][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:38.965][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:38.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:38.970][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:38.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:38.972][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:38.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:38.974][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.978][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.981][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.982][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 20:31:38.983][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 20:31:38.984][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 20:31:38.985][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.986][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.987][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.989][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.990][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.991][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.993][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.994][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.995][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:38.996][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.997][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:38.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:38.999][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:38.999][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 20:31:39.000][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.004][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.012][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-08-31 20:31:39.013][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:39.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:39.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:39.020][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:39.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:39.021][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:39.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:39.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.027][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.031][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:39.032][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 20:31:39.033][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 20:31:39.034][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 20:31:39.035][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:39.036][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.037][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.039][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.040][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.041][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.043][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.044][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:39.045][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:39.046][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.047][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.049][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.050][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 20:31:39.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.055][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.058][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.061][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.063][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-31 20:31:39.064][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:39.065][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:39.065][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:39.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:39.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:39.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:39.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:39.074][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.078][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.082][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:39.083][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 20:31:39.083][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 20:31:39.084][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 20:31:39.085][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:39.086][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.087][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.089][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.090][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.091][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.092][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.093][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.094][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:39.095][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:39.096][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.097][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.099][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.100][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 20:31:39.101][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.105][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.113][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-08-31 20:31:39.114][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-31 20:31:39.115][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-31 20:31:39.136][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.140][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:39.155][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:39.156][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:39.157][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:39.161][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:39.162][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:39.163][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:39.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:39.166][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".
biodb.DEBUG[2025-08-31 20:31:39.169][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:39.170][cch$loadFileContent] Trying to load 1 files from cache: [1]: "49f51d93ac229648aa454636918ce386".
biodb.TRACE[2025-08-31 20:31:39.172][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:39.173][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/49f51d93ac229648aa454636918ce386.content".
biodb.DEBUG[2025-08-31 20:31:39.176][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".
biodb.DEBUG[2025-08-31 20:31:39.179][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:39.180][cch$loadFileContent] Trying to load 1 files from cache: [1]: "121ea95906eb67bed88948c362686e4f".
biodb.TRACE[2025-08-31 20:31:39.181][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:39.182][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/121ea95906eb67bed88948c362686e4f.content".
biodb.DEBUG[2025-08-31 20:31:39.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:39.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:39.187][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:39.191][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:39.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:39.193][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:39.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:39.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.197][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.198][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.202][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:39.206][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:39.207][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:39.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:39.212][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:39.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:39.214][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:39.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:39.216][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.220][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.224][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:39.228][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:39.229][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:39.230][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:39.234][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:39.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:39.236][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:39.237][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:39.238][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.242][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.246][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:39.250][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-08-31 20:31:39.252][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:39.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:39.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:39.258][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:39.259][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:39.260][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:39.261][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:39.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.266][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.270][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:39.271][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 20:31:39.272][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 20:31:39.273][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 20:31:39.274][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:39.275][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.276][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.277][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.278][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.279][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.281][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.282][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:39.283][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:39.284][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.285][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.287][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.288][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 20:31:39.289][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.290][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.297][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.301][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-08-31 20:31:39.302][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:39.303][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:39.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:39.308][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:39.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:39.310][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:39.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:39.312][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.316][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.320][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:39.321][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 20:31:39.322][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 20:31:39.323][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 20:31:39.324][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:39.325][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.326][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.328][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.329][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.330][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.332][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.333][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:39.334][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:39.335][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.336][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.338][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.339][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 20:31:39.340][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.344][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.348][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.352][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-08-31 20:31:39.353][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:39.354][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:39.355][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:39.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:39.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:39.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:39.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:39.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.367][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.371][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:39.372][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-08-31 20:31:39.373][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-08-31 20:31:39.374][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-08-31 20:31:39.375][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:39.376][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.377][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.379][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.380][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.381][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.383][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.384][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:39.385][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-08-31 20:31:39.386][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.387][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.389][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.390][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-08-31 20:31:39.391][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.392][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.395][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.398][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.399][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.403][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-08-31 20:31:39.404][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-08-31 20:31:39.405][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-08-31 20:31:39.421][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-08-31 20:31:39.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-08-31 20:31:39.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-08-31 20:31:39.428][biodb::testThat]
biodb.INFO [2025-08-31 20:31:39.429][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-08-31 20:31:39.430][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:39.431][biodb::testThat]
biodb.DEBUG[2025-08-31 20:31:39.432][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-08-31 20:31:39.433][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:39.435][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-08-31 20:31:39.436][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:39.438][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml".
biodb.DEBUG[2025-08-31 20:31:39.439][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:39.440][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:39.441][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:39.443][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:39.443][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:39.444][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:39.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:39.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:39.450][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:39.451][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:39.453][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.454][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.455][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.456][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.457][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.466][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:39.467][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:39.468][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.469][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.470][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:39.471][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:39.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.473][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.474][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:39.475][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:39.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.477][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.478][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:39.479][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:39.480][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.481][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.482][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:39.483][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:39.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.485][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.486][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:39.487][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:39.488][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.489][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.490][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.491][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.493][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.494][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:39.495][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:39.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.497][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.498][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:39.499][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:39.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.501][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.502][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:39.503][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:39.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.505][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.510][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.517][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.525][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.538][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:39.544][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-08-31 20:31:39.544][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-08-31 20:31:39.551][biodb::testThat]
biodb.INFO [2025-08-31 20:31:39.552][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-08-31 20:31:39.553][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:39.554][biodb::testThat]
biodb.DEBUG[2025-08-31 20:31:39.562][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-08-31 20:31:39.563][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-08-31 20:31:39.564][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
biodb.TRACE[2025-08-31 20:31:39.565][cch$loadFileContent] Trying to load 3 files from cache: [3]: "WRONGB, 2528, 7799".
biodb.TRACE[2025-08-31 20:31:39.567][cch$loadFileContent] file.exist = [3]: "TRUE, TRUE, TRUE".
biodb.TRACE[2025-08-31 20:31:39.569][loadFileContents] Loaded 3 files from cache: [3]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml, /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml".
biodb.DEBUG[2025-08-31 20:31:39.570][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:39.571][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-08-31 20:31:39.572][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:39.574][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:39.575][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:39.576][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:39.580][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:39.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:39.581][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:39.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:39.584][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.585][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.587][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.588][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.592][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:39.593][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:39.594][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.595][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.596][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:39.597][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:39.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.599][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.601][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:39.602][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:39.603][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.603][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.605][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:39.606][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:39.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.607][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.609][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:39.610][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:39.610][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.611][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.613][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:39.614][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:39.614][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.615][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.617][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.618][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.619][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.621][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:39.622][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:39.622][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.623][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.625][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:39.626][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:39.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.627][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.629][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:39.630][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:39.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.631][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.636][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.636][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.644][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:39.660][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:39.661][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:39.662][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:39.666][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:39.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:39.668][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:39.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:39.671][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.672][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.674][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.679][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:39.680][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:39.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.682][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.683][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:39.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:39.685][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.687][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:39.688][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:39.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.690][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.691][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:39.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:39.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.695][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:39.696][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:39.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.698][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.699][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:39.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:39.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.703][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:39.704][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:39.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.706][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.707][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:39.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:39.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.711][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:39.712][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:39.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.714][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.715][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:39.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:39.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.719][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:39.720][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:39.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.722][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.723][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:39.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:39.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.727][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.728][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.730][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.731][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.735][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:39.736][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:39.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.738][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.739][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:39.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:39.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.743][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:39.744][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:39.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.746][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.747][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:39.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:39.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.751][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:39.753][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:39.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.754][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.756][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:39.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:39.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.760][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.763][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.767][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:39.787][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:39.788][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:39.789][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:39.793][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:39.794][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:39.795][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:39.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:39.803][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.804][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.805][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.811][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:39.812][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:39.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.813][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.815][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:39.816][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:39.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.818][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:39.819][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:39.820][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.821][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.822][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:39.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:39.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.826][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:39.827][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:39.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.829][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.830][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:39.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:39.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.834][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:39.835][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:39.836][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.837][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.838][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:39.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:39.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.842][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:39.843][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:39.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.845][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.846][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:39.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:39.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.850][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:39.851][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:39.852][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.852][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.854][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:39.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:39.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.858][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.859][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.860][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.862][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:39.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.865][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:39.866][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:39.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.868][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.870][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:39.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:39.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.873][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:39.874][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:39.875][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.876][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.877][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:39.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:39.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.881][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:39.882][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:39.883][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.884][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.885][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:39.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:39.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.889][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.893][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.897][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:39.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.908][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.909][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.916][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.920][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.924][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.928][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.932][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.939][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.941][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.942][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.943][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:39.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:39.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:39.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:39.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:39.951][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-08-31 20:31:39.952][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-08-31 20:31:39.953][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-08-31 20:31:39.964][biodb::testThat]
biodb.INFO [2025-08-31 20:31:39.965][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-08-31 20:31:39.966][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:39.967][biodb::testThat]
biodb.INFO [2025-08-31 20:31:39.989][biodb::testThat]
biodb.INFO [2025-08-31 20:31:39.990][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-08-31 20:31:39.991][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:39.992][biodb::testThat]
biodb.INFO [2025-08-31 20:31:39.999][biodb::testThat]
biodb.INFO [2025-08-31 20:31:40.000][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-08-31 20:31:40.001][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:40.002][biodb::testThat]
biodb.DEBUG[2025-08-31 20:31:40.004][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".
biodb.DEBUG[2025-08-31 20:31:40.007][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:40.009][cch$loadFileContent] Trying to load 1 files from cache: [1]: "aed2cd6d5d221333c0a30a9f8dbc41b4".
biodb.TRACE[2025-08-31 20:31:40.010][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:40.012][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/aed2cd6d5d221333c0a30a9f8dbc41b4.content".
biodb.TRACE[2025-08-31 20:31:40.022][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:40.023][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:40.024][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:40.025][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:40.026][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:40.027][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:40.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:40.029][ef$get] fields variable is a list.
biodb.INFO [2025-08-31 20:31:40.031][biodb::testThat]
biodb.INFO [2025-08-31 20:31:40.032][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-08-31 20:31:40.032][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:40.033][biodb::testThat]
biodb.ERROR[2025-08-31 20:31:40.046][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-08-31 20:31:40.060][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-08-31 20:31:40.071][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-31 20:31:40.072][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-08-31 20:31:40.073][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-31 20:31:40.074][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-31 20:31:40.075][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.076][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.077][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.078][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.079][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-31 20:31:40.089][biodb::testContext]
biodb.INFO [2025-08-31 20:31:40.090][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-31 20:31:40.091][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-08-31 20:31:40.092][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-31 20:31:40.093][biodb::testContext]
biodb.INFO [2025-08-31 20:31:40.095][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-31 20:31:40.096][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-31 20:31:40.100][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 20:31:40.101][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-31 20:31:40.102][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-31 20:31:40.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.106][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-31 20:31:40.107][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-31 20:31:40.108][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.108][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.109][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.110][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-31 20:31:40.111][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-31 20:31:40.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.115][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-31 20:31:40.116][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-31 20:31:40.117][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-31 20:31:40.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.120][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.121][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-31 20:31:40.121][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-31 20:31:40.123][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-31 20:31:40.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.125][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.132][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-31 20:31:40.133][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-31 20:31:40.134][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.135][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.136][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-31 20:31:40.137][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-31 20:31:40.138][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-31 20:31:40.139][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.140][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.141][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.142][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-31 20:31:40.143][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-31 20:31:40.144][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.144][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.145][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.146][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-31 20:31:40.147][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-31 20:31:40.148][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-31 20:31:40.149][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.150][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.152][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-31 20:31:40.153][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-31 20:31:40.154][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-31 20:31:40.155][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-31 20:31:40.156][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-31 20:31:40.157][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-31 20:31:40.157][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.159][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[2025-08-31 20:31:40.160][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-31 20:31:40.161][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-31 20:31:40.162][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.164][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.165][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-31 20:31:40.166][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-31 20:31:40.166][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.167][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.168][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.169][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-31 20:31:40.170][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-31 20:31:40.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.174][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-31 20:31:40.175][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-31 20:31:40.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.177][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.178][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-31 20:31:40.179][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-31 20:31:40.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.182][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-31 20:31:40.183][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-31 20:31:40.187][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-31 20:31:40.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.189][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.DEBUG[2025-08-31 20:31:40.190][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-31 20:31:40.191][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-31 20:31:40.192][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-31 20:31:40.193][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.195][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.196][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-31 20:31:40.197][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:40.198][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-31 20:31:40.199][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.200][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 20:31:40.201][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.202][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 20:31:40.203][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:40.204][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 20:31:40.205][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-31 20:31:40.206][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 20:31:40.207][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.208][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-31 20:31:40.209][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 20:31:40.210][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:40.211][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.212][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 20:31:40.212][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 20:31:40.212][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 20:31:40.212][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-31 20:31:40.212][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-31 20:31:40.213][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 20:31:40.214][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:40.215][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:40.216][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 20:31:40.216][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:40.217][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:40.218][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 20:31:40.219][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:40.220][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 20:31:40.221][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 20:31:40.222][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:40.223][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:40.224][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-31 20:31:40.226][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:40.227][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-31 20:31:40.228][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.229][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 20:31:40.230][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.231][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 20:31:40.232][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:40.233][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 20:31:40.234][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-31 20:31:40.235][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 20:31:40.236][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.237][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-31 20:31:40.238][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 20:31:40.239][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:40.240][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.241][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 20:31:40.241][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 20:31:40.241][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 20:31:40.241][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-31 20:31:40.241][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-31 20:31:40.242][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 20:31:40.243][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:40.244][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:40.245][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 20:31:40.246][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:40.246][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:40.247][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 20:31:40.248][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:40.249][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 20:31:40.250][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 20:31:40.251][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:40.252][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:40.253][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-31 20:31:40.255][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.256][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-31 20:31:40.257][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.258][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 20:31:40.259][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.260][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 20:31:40.261][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:40.262][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 20:31:40.263][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-31 20:31:40.264][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 20:31:40.265][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:40.266][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-31 20:31:40.267][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 20:31:40.268][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:40.269][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.270][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:40.271][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 20:31:40.272][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:40.273][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:40.274][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 20:31:40.275][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:40.276][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:40.277][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 20:31:40.278][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:40.279][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 20:31:40.280][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 20:31:40.281][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:40.282][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:40.283][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-31 20:31:40.285][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.286][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-31 20:31:40.287][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.288][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 20:31:40.289][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.290][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 20:31:40.291][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:40.292][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 20:31:40.293][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-31 20:31:40.294][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 20:31:40.295][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:40.296][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-31 20:31:40.297][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 20:31:40.298][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:40.299][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.300][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:40.301][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 20:31:40.302][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:40.303][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:40.304][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 20:31:40.305][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:40.306][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:40.306][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 20:31:40.307][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:40.308][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 20:31:40.309][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 20:31:40.310][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:40.311][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:40.313][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 20:31:40.313][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.314][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.315][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.316][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.318][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.320][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.322][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.322][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.323][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[2025-08-31 20:31:40.324][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.325][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.328][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[2025-08-31 20:31:40.329][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.330][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.331][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.333][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.337][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.DEBUG[2025-08-31 20:31:40.337][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.338][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.341][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.342][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.344][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.346][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.348][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.349][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.350][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[2025-08-31 20:31:40.351][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.354][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.355][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.356][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.357][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.358][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[2025-08-31 20:31:40.359][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.362][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.363][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.365][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.367][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.368][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.369][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.371][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.372][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.374][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.385][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.387][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.388][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.389][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.390][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-31 20:31:40.391][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-31 20:31:40.393][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-31 20:31:40.394][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-31 20:31:40.395][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-31 20:31:40.397][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-31 20:31:40.398][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-31 20:31:40.400][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-31 20:31:40.401][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-31 20:31:40.402][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-31 20:31:40.404][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-31 20:31:40.405][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-31 20:31:40.406][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-31 20:31:40.408][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-31 20:31:40.409][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-31 20:31:40.410][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-31 20:31:40.412][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-31 20:31:40.413][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-31 20:31:40.414][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-31 20:31:40.416][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-31 20:31:40.417][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-31 20:31:40.418][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-31 20:31:40.420][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-31 20:31:40.421][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-31 20:31:40.422][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-31 20:31:40.424][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-31 20:31:40.425][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-31 20:31:40.426][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-31 20:31:40.428][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-31 20:31:40.429][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-31 20:31:40.431][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-31 20:31:40.432][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-31 20:31:40.433][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-31 20:31:40.435][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-31 20:31:40.436][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-31 20:31:40.437][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-31 20:31:40.439][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-31 20:31:40.440][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-31 20:31:40.441][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-31 20:31:40.443][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-31 20:31:40.444][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-31 20:31:40.445][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-31 20:31:40.447][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-31 20:31:40.448][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-31 20:31:40.449][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-31 20:31:40.451][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-31 20:31:40.452][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-31 20:31:40.453][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-31 20:31:40.459][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-31 20:31:40.461][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-31 20:31:40.462][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-31 20:31:40.463][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-31 20:31:40.465][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-31 20:31:40.466][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-31 20:31:40.467][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-31 20:31:40.468][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-31 20:31:40.470][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-31 20:31:40.471][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-31 20:31:40.472][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-31 20:31:40.474][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-31 20:31:40.475][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-31 20:31:40.476][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-31 20:31:40.477][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-31 20:31:40.479][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-31 20:31:40.480][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-31 20:31:40.481][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-31 20:31:40.483][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-31 20:31:40.484][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-31 20:31:40.485][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-31 20:31:40.486][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-31 20:31:40.488][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-31 20:31:40.489][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-31 20:31:40.490][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-31 20:31:40.492][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-31 20:31:40.493][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-31 20:31:40.494][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-31 20:31:40.496][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-31 20:31:40.497][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-31 20:31:40.498][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-31 20:31:40.499][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-31 20:31:40.501][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-31 20:31:40.502][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-31 20:31:40.503][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-31 20:31:40.505][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-31 20:31:40.506][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-31 20:31:40.507][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 20:31:40.508][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.509][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.510][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.511][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[2025-08-31 20:31:40.511][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.513][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.517][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.518][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.523][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.524][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.525][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.527][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.528][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.528][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[2025-08-31 20:31:40.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.531][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.533][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.533][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.534][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.535][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.536][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.537][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.538][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.539][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.540][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.541][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.542][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.545][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.546][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[2025-08-31 20:31:40.547][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.548][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.550][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.552][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.DEBUG[2025-08-31 20:31:40.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.555][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.557][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.558][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.558][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[2025-08-31 20:31:40.559][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.560][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.562][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.563][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.565][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.565][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.567][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.569][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.570][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.571][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.572][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.573][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.574][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.576][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.578][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.579][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.580][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.581][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.583][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[2025-08-31 20:31:40.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.585][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.585][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.589][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.590][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.591][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.593][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.594][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.595][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.596][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.597][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.598][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.598][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.599][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.601][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.602][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.603][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.604][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.605][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.607][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.608][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.611][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.615][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-31 20:31:40.616][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-31 20:31:40.618][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:40.619][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-31 20:31:40.620][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.621][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 20:31:40.622][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.623][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 20:31:40.624][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.625][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-31 20:31:40.626][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-31 20:31:40.627][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 20:31:40.628][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.629][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-31 20:31:40.630][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 20:31:40.631][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-31 20:31:40.631][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-31 20:31:40.631][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-31 20:31:40.631][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-31 20:31:40.631][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-31 20:31:40.631][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-31 20:31:40.631][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-31 20:31:40.631][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-31 20:31:40.631][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-31 20:31:40.631][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-31 20:31:40.631][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-31 20:31:40.632][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:40.633][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 20:31:40.633][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 20:31:40.633][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 20:31:40.634][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-31 20:31:40.635][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:40.636][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:40.637][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 20:31:40.638][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:40.638][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:40.639][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 20:31:40.640][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-31 20:31:40.640][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-31 20:31:40.641][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 20:31:40.642][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 20:31:40.643][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:40.644][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-31 20:31:40.644][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-31 20:31:40.645][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-31 20:31:40.647][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-31 20:31:40.649][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-31 20:31:40.650][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-31 20:31:40.651][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-31 20:31:40.653][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-31 20:31:40.656][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-31 20:31:40.657][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-08-31 20:31:40.658][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-08-31 20:31:40.660][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-08-31 20:31:40.661][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-31 20:31:40.662][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-31 20:31:40.663][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-08-31 20:31:40.664][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-31 20:31:40.665][biodb::testThat]
biodb.INFO [2025-08-31 20:31:40.666][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-08-31 20:31:40.667][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:40.668][biodb::testThat]
biodb.DEBUG[2025-08-31 20:31:40.672][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-08-31 20:31:40.675][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:40.677][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-08-31 20:31:40.678][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:40.679][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-08-31 20:31:40.683][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".
biodb.DEBUG[2025-08-31 20:31:40.686][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:40.687][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-08-31 20:31:40.689][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:40.690][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-08-31 20:31:40.692][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:40.693][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.698][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.700][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.701][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.703][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".
biodb.DEBUG[2025-08-31 20:31:40.706][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:40.707][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-08-31 20:31:40.709][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:40.710][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-08-31 20:31:40.712][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:40.713][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.714][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.718][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.720][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.721][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[2025-08-31 20:31:40.737][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:40.738][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.739][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.746][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.747][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[2025-08-31 20:31:40.752][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".
biodb.DEBUG[2025-08-31 20:31:40.755][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:40.756][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-08-31 20:31:40.758][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:40.759][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-08-31 20:31:40.761][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:40.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.767][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.768][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.769][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[2025-08-31 20:31:40.771][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".
biodb.DEBUG[2025-08-31 20:31:40.774][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:40.775][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-08-31 20:31:40.776][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:40.778][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-08-31 20:31:40.780][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:40.781][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.786][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.787][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.793][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.793][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[2025-08-31 20:31:40.794][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:40.795][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.800][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.801][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.802][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.803][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[2025-08-31 20:31:40.806][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".
biodb.DEBUG[2025-08-31 20:31:40.809][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:40.810][cch$loadFileContent] Trying to load 1 files from cache: [1]: "0e2b277bfac878e1dcf7dc3f91acb8d3".
biodb.TRACE[2025-08-31 20:31:40.812][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:40.813][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/0e2b277bfac878e1dcf7dc3f91acb8d3.content".
biodb.DEBUG[2025-08-31 20:31:40.814][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:40.815][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.816][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.825][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".
biodb.DEBUG[2025-08-31 20:31:40.827][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:40.829][cch$loadFileContent] Trying to load 1 files from cache: [1]: "b767b3e02c49727a1749efea3e381744".
biodb.TRACE[2025-08-31 20:31:40.830][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:40.831][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/b767b3e02c49727a1749efea3e381744.content".
biodb.DEBUG[2025-08-31 20:31:40.833][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:40.834][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.839][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.841][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.DEBUG[2025-08-31 20:31:40.843][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".
biodb.DEBUG[2025-08-31 20:31:40.846][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:40.847][cch$loadFileContent] Trying to load 1 files from cache: [1]: "70e3912746e7e39b39fbbffe6c90b502".
biodb.TRACE[2025-08-31 20:31:40.848][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:40.850][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70e3912746e7e39b39fbbffe6c90b502.content".
biodb.DEBUG[2025-08-31 20:31:40.851][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:40.852][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.853][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.857][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.859][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.860][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.INFO [2025-08-31 20:31:40.866][biodb::testThat]
biodb.INFO [2025-08-31 20:31:40.867][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-08-31 20:31:40.868][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:40.868][biodb::testThat]
biodb.DEBUG[2025-08-31 20:31:40.880][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".
biodb.DEBUG[2025-08-31 20:31:40.885][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:40.887][cch$loadFileContent] Trying to load 1 files from cache: [1]: "64007787a4f3864bb479683766386808".
biodb.TRACE[2025-08-31 20:31:40.888][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:40.890][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/64007787a4f3864bb479683766386808.content".
biodb.DEBUG[2025-08-31 20:31:40.893][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:40.894][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.895][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.901][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.902][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.903][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.904][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[2025-08-31 20:31:40.908][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".
biodb.DEBUG[2025-08-31 20:31:40.912][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:40.913][cch$loadFileContent] Trying to load 1 files from cache: [1]: "7547b08b3ebd50447d61026ab0af8d63".
biodb.TRACE[2025-08-31 20:31:40.915][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:40.916][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7547b08b3ebd50447d61026ab0af8d63.content".
biodb.DEBUG[2025-08-31 20:31:40.919][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:40.920][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.922][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.926][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.927][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.928][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.929][FUN] Functions in observer BiodbConfig: [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 [2025-08-31 20:31:40.934][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-31 20:31:40.936][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-08-31 20:31:40.937][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-31 20:31:40.938][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-31 20:31:40.939][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:40.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:40.941][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:40.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:40.943][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-31 20:31:40.948][biodb::testContext]
biodb.INFO [2025-08-31 20:31:40.949][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-31 20:31:40.950][biodb::testContext] Test context - Test web services
biodb.INFO [2025-08-31 20:31:40.951][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-31 20:31:40.952][biodb::testContext]
biodb.INFO [2025-08-31 20:31:40.954][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-31 20:31:40.956][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-31 20:31:40.960][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 20:31:40.961][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-31 20:31:40.962][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-31 20:31:40.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.966][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-31 20:31:40.967][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-31 20:31:40.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.970][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.971][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-31 20:31:40.972][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-31 20:31:40.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.975][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.976][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-31 20:31:40.977][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-31 20:31:40.979][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-31 20:31:40.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.981][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[2025-08-31 20:31:40.982][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-31 20:31:40.984][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-31 20:31:40.985][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-31 20:31:40.986][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.989][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-31 20:31:40.990][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-31 20:31:40.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:40.994][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-31 20:31:40.995][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-31 20:31:40.996][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-31 20:31:40.997][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:40.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:40.999][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.000][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-31 20:31:41.001][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-31 20:31:41.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.005][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-31 20:31:41.006][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-31 20:31:41.007][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-31 20:31:41.008][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.009][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.011][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-31 20:31:41.012][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-31 20:31:41.013][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-31 20:31:41.014][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-31 20:31:41.015][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-31 20:31:41.016][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-31 20:31:41.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.020][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-31 20:31:41.021][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-31 20:31:41.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.025][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-31 20:31:41.026][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-31 20:31:41.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.029][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[2025-08-31 20:31:41.030][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-31 20:31:41.031][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-31 20:31:41.032][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.035][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-31 20:31:41.036][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-31 20:31:41.037][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.040][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-31 20:31:41.041][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-31 20:31:41.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.044][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.045][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-31 20:31:41.046][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-31 20:31:41.050][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-31 20:31:41.051][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.054][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-31 20:31:41.055][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-31 20:31:41.056][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-31 20:31:41.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.061][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-31 20:31:41.063][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.064][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-31 20:31:41.065][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.066][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 20:31:41.067][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.068][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.069][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.070][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.071][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-31 20:31:41.073][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 20:31:41.074][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.075][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-31 20:31:41.076][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 20:31:41.077][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.078][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.079][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 20:31:41.079][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 20:31:41.079][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 20:31:41.079][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-31 20:31:41.079][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-31 20:31:41.080][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 20:31:41.081][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:41.082][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:41.083][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 20:31:41.084][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:41.085][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:41.086][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.087][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.088][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 20:31:41.089][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 20:31:41.090][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.091][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.092][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-31 20:31:41.094][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.095][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-31 20:31:41.096][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.097][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 20:31:41.098][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.099][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.101][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.102][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.103][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-31 20:31:41.104][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 20:31:41.105][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.106][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-31 20:31:41.107][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 20:31:41.108][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.109][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.110][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 20:31:41.110][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 20:31:41.110][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 20:31:41.110][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-31 20:31:41.110][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-31 20:31:41.111][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 20:31:41.112][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:41.113][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:41.114][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 20:31:41.115][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:41.116][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:41.117][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.118][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.119][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 20:31:41.120][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 20:31:41.121][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.122][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.124][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-31 20:31:41.125][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.126][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-31 20:31:41.127][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.129][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 20:31:41.130][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.131][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.132][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.133][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.134][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-31 20:31:41.135][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 20:31:41.136][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.137][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-31 20:31:41.138][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 20:31:41.139][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.140][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.141][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.142][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 20:31:41.143][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:41.144][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:41.145][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 20:31:41.146][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:41.147][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:41.148][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.149][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.150][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 20:31:41.151][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 20:31:41.152][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.153][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.155][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-31 20:31:41.156][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.158][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-31 20:31:41.159][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.160][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 20:31:41.161][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.162][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.163][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.164][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.165][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-31 20:31:41.178][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 20:31:41.179][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.180][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-31 20:31:41.181][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 20:31:41.182][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.183][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.184][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.185][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 20:31:41.186][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:41.187][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:41.188][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 20:31:41.189][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:41.190][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:41.191][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.192][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.193][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 20:31:41.194][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 20:31:41.195][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.196][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.197][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 20:31:41.198][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.202][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.204][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[2025-08-31 20:31:41.205][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.206][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.208][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.209][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.213][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[2025-08-31 20:31:41.214][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.216][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.218][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.219][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.220][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.221][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.222][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.225][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.226][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.227][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.228][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.229][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.230][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.231][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.232][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[2025-08-31 20:31:41.233][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.235][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.241][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[2025-08-31 20:31:41.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.249][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.250][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[2025-08-31 20:31:41.251][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.253][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.255][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.256][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.257][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.258][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.259][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.260][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.261][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.262][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.264][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[2025-08-31 20:31:41.265][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.265][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.267][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.268][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.269][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.270][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.271][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.271][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.276][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.277][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.278][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-31 20:31:41.279][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-31 20:31:41.280][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-31 20:31:41.282][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-31 20:31:41.283][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-31 20:31:41.285][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-31 20:31:41.286][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-31 20:31:41.287][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-31 20:31:41.289][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-31 20:31:41.290][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-31 20:31:41.291][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-31 20:31:41.293][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-31 20:31:41.294][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-31 20:31:41.296][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-31 20:31:41.297][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-31 20:31:41.298][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-31 20:31:41.300][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-31 20:31:41.301][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-31 20:31:41.302][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-31 20:31:41.304][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-31 20:31:41.305][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-31 20:31:41.306][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-31 20:31:41.308][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-31 20:31:41.309][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-31 20:31:41.311][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-31 20:31:41.312][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-31 20:31:41.313][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-31 20:31:41.315][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-31 20:31:41.316][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-31 20:31:41.317][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-31 20:31:41.319][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-31 20:31:41.320][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-31 20:31:41.321][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-31 20:31:41.323][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-31 20:31:41.324][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-31 20:31:41.325][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-31 20:31:41.327][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-31 20:31:41.328][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-31 20:31:41.329][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-31 20:31:41.331][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-31 20:31:41.332][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-31 20:31:41.333][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-31 20:31:41.335][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-31 20:31:41.336][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-31 20:31:41.337][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-31 20:31:41.339][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-31 20:31:41.340][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-31 20:31:41.341][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-31 20:31:41.343][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-31 20:31:41.344][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-31 20:31:41.345][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-31 20:31:41.347][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-31 20:31:41.348][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-31 20:31:41.349][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-31 20:31:41.351][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-31 20:31:41.352][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-31 20:31:41.353][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-31 20:31:41.355][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-31 20:31:41.356][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-31 20:31:41.358][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-31 20:31:41.359][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-31 20:31:41.360][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-31 20:31:41.362][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-31 20:31:41.363][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-31 20:31:41.364][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-31 20:31:41.366][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-31 20:31:41.367][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-31 20:31:41.368][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-31 20:31:41.370][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-31 20:31:41.371][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-31 20:31:41.372][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-31 20:31:41.374][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-31 20:31:41.375][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-31 20:31:41.376][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-31 20:31:41.378][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-31 20:31:41.379][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-31 20:31:41.380][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-31 20:31:41.382][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-31 20:31:41.383][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-31 20:31:41.384][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-31 20:31:41.386][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-31 20:31:41.387][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-31 20:31:41.388][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-31 20:31:41.390][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-31 20:31:41.391][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-31 20:31:41.392][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 20:31:41.393][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.395][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:41.398][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:41.399][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.400][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.402][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.DEBUG[2025-08-31 20:31:41.403][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:41.404][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:41.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.409][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:41.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:41.411][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.412][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.414][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.415][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:41.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:41.417][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.420][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:41.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:41.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.426][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:41.428][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:41.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:41.434][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:41.435][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.438][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[2025-08-31 20:31:41.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:41.441][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:41.441][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.442][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.444][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.445][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:41.447][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:41.447][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.448][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.449][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.450][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:41.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:41.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.456][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:41.459][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:41.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.461][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.462][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[2025-08-31 20:31:41.463][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.464][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:41.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:41.466][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.467][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.468][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[2025-08-31 20:31:41.469][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:41.471][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:41.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.475][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.476][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:41.477][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:41.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.479][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.480][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:41.483][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:41.484][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.486][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:41.489][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:41.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.493][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[2025-08-31 20:31:41.494][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:41.495][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:41.501][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.502][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.506][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-31 20:31:41.507][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-31 20:31:41.509][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.510][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.511][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.512][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 20:31:41.513][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.514][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.515][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.515][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-31 20:31:41.516][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-31 20:31:41.517][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 20:31:41.518][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.519][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-31 20:31:41.520][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 20:31:41.521][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-31 20:31:41.521][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-31 20:31:41.521][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-31 20:31:41.521][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-31 20:31:41.521][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-31 20:31:41.521][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-31 20:31:41.521][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-31 20:31:41.521][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-31 20:31:41.521][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-31 20:31:41.521][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-31 20:31:41.521][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-31 20:31:41.522][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.523][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 20:31:41.523][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 20:31:41.523][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 20:31:41.524][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-31 20:31:41.525][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:41.526][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:41.527][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 20:31:41.528][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:41.529][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:41.530][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.531][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-31 20:31:41.531][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-31 20:31:41.531][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 20:31:41.532][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 20:31:41.533][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.534][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-31 20:31:41.534][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-31 20:31:41.535][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-31 20:31:41.537][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-31 20:31:41.538][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-31 20:31:41.540][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-31 20:31:41.541][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-31 20:31:41.543][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-31 20:31:41.546][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-31 20:31:41.547][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-08-31 20:31:41.548][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-08-31 20:31:41.549][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-08-31 20:31:41.550][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-31 20:31:41.551][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-31 20:31:41.553][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-08-31 20:31:41.554][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-31 20:31:41.555][biodb::testThat]
biodb.INFO [2025-08-31 20:31:41.556][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-08-31 20:31:41.557][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:41.558][biodb::testThat]
biodb.DEBUG[2025-08-31 20:31:41.560][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-08-31 20:31:41.564][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:41.565][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-08-31 20:31:41.566][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:41.568][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-08-31 20:31:41.571][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".
biodb.DEBUG[2025-08-31 20:31:41.573][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:41.575][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-08-31 20:31:41.576][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:41.577][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.INFO [2025-08-31 20:31:41.584][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-31 20:31:41.585][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-08-31 20:31:41.586][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-31 20:31:41.587][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-31 20:31:41.588][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:41.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:41.590][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.591][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.591][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.592][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-08-31 20:31:41.596][biodb::testContext]
biodb.INFO [2025-08-31 20:31:41.596][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-31 20:31:41.597][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-08-31 20:31:41.598][biodb::testContext] ********************************************************************************
biodb.INFO [2025-08-31 20:31:41.599][biodb::testContext]
biodb.INFO [2025-08-31 20:31:41.601][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.16.0.
biodb.DEBUG[2025-08-31 20:31:41.603][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-08-31 20:31:41.606][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 20:31:41.607][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-08-31 20:31:41.608][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-08-31 20:31:41.609][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.610][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.611][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.612][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-08-31 20:31:41.613][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-08-31 20:31:41.614][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.615][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.617][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-08-31 20:31:41.618][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-08-31 20:31:41.618][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.619][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.620][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.621][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-08-31 20:31:41.622][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-08-31 20:31:41.623][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-08-31 20:31:41.624][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.625][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.626][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.627][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-08-31 20:31:41.627][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-08-31 20:31:41.628][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-08-31 20:31:41.629][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.632][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-08-31 20:31:41.633][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-08-31 20:31:41.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.637][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-08-31 20:31:41.637][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-08-31 20:31:41.639][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-08-31 20:31:41.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.641][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.642][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-08-31 20:31:41.643][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-08-31 20:31:41.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.647][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-08-31 20:31:41.648][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-08-31 20:31:41.649][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-08-31 20:31:41.649][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.651][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.652][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-08-31 20:31:41.653][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-08-31 20:31:41.654][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-08-31 20:31:41.655][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-08-31 20:31:41.656][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-08-31 20:31:41.657][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-08-31 20:31:41.658][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.660][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-08-31 20:31:41.661][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-08-31 20:31:41.662][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.664][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.665][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-08-31 20:31:41.666][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-08-31 20:31:41.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.669][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-08-31 20:31:41.670][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-08-31 20:31:41.671][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.672][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.673][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.674][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-08-31 20:31:41.675][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-08-31 20:31:41.676][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.678][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.678][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-08-31 20:31:41.679][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-08-31 20:31:41.680][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.681][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.682][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.683][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-08-31 20:31:41.684][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-08-31 20:31:41.688][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-08-31 20:31:41.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.691][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.692][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-08-31 20:31:41.693][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-08-31 20:31:41.694][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-08-31 20:31:41.694][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.695][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.696][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.697][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-08-31 20:31:41.699][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.700][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-08-31 20:31:41.701][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.702][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 20:31:41.703][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.704][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.705][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.706][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.707][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-31 20:31:41.708][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 20:31:41.709][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.710][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-08-31 20:31:41.711][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 20:31:41.712][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.713][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.714][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 20:31:41.714][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 20:31:41.714][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 20:31:41.714][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-31 20:31:41.714][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-31 20:31:41.715][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 20:31:41.715][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:41.716][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:41.717][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 20:31:41.718][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:41.719][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:41.720][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.721][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.722][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 20:31:41.723][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 20:31:41.724][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.725][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.726][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-08-31 20:31:41.728][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.729][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-08-31 20:31:41.730][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.730][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 20:31:41.731][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.732][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.733][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.734][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.735][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-31 20:31:41.736][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 20:31:41.737][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.738][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-08-31 20:31:41.739][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 20:31:41.740][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.741][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.742][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 20:31:41.742][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 20:31:41.742][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 20:31:41.742][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-08-31 20:31:41.742][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-08-31 20:31:41.743][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 20:31:41.744][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:41.745][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:41.746][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 20:31:41.747][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:41.748][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:41.748][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.749][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.750][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 20:31:41.751][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 20:31:41.752][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.753][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.754][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-08-31 20:31:41.756][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.757][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-08-31 20:31:41.758][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.759][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 20:31:41.760][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.761][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.762][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.763][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.764][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-08-31 20:31:41.765][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 20:31:41.766][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.767][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-08-31 20:31:41.768][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 20:31:41.769][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.770][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.770][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.771][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 20:31:41.772][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:41.773][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:41.774][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 20:31:41.775][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:41.776][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:41.777][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.778][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.779][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 20:31:41.780][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 20:31:41.781][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.782][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.783][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-08-31 20:31:41.784][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.785][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-08-31 20:31:41.786][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.787][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 20:31:41.788][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.789][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.790][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.791][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.792][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-08-31 20:31:41.793][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 20:31:41.794][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.795][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-08-31 20:31:41.796][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 20:31:41.797][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.798][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:41.799][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.800][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-08-31 20:31:41.801][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:41.802][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:41.803][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 20:31:41.804][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:41.805][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:41.806][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 20:31:41.807][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.808][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 20:31:41.808][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 20:31:41.809][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:41.810][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-08-31 20:31:41.812][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 20:31:41.812][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.813][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.814][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.816][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.817][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.818][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.819][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.820][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.822][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.823][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.824][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.831][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.833][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.834][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.835][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.836][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.837][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.838][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.838][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.841][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.DEBUG[2025-08-31 20:31:41.842][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.843][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.845][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[2025-08-31 20:31:41.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.848][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.849][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.850][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.852][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.853][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.854][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[2025-08-31 20:31:41.855][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.855][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.856][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.857][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.858][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.859][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.860][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.860][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.863][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.864][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.866][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.866][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.869][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.871][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.872][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.874][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.876][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.877][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.877][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.878][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.879][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.880][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.881][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.883][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.883][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.884][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.885][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.888][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.DEBUG[2025-08-31 20:31:41.889][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:41.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:41.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:41.891][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:41.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:41.893][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-08-31 20:31:41.894][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-08-31 20:31:41.896][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-08-31 20:31:41.897][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-08-31 20:31:41.898][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-31 20:31:41.900][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-08-31 20:31:41.901][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-08-31 20:31:41.902][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-08-31 20:31:41.904][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-08-31 20:31:41.905][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-08-31 20:31:41.906][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-31 20:31:41.907][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-08-31 20:31:41.909][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-08-31 20:31:41.910][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-08-31 20:31:41.911][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-08-31 20:31:41.913][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-08-31 20:31:41.914][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-08-31 20:31:41.915][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-08-31 20:31:41.917][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-31 20:31:41.918][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-08-31 20:31:41.919][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-08-31 20:31:41.921][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-08-31 20:31:41.922][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-08-31 20:31:41.923][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-08-31 20:31:41.925][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-08-31 20:31:41.926][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-08-31 20:31:41.927][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-08-31 20:31:41.929][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-08-31 20:31:41.930][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-08-31 20:31:41.931][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-08-31 20:31:41.933][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-08-31 20:31:41.934][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-08-31 20:31:41.935][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-08-31 20:31:41.937][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-08-31 20:31:41.938][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-08-31 20:31:41.939][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-08-31 20:31:41.940][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-08-31 20:31:41.942][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-08-31 20:31:41.943][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-08-31 20:31:41.944][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-08-31 20:31:41.946][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-08-31 20:31:41.947][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-08-31 20:31:41.948][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-08-31 20:31:41.950][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-08-31 20:31:41.951][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-08-31 20:31:41.953][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-08-31 20:31:41.954][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-08-31 20:31:41.955][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-08-31 20:31:41.957][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-08-31 20:31:41.958][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-08-31 20:31:41.959][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-08-31 20:31:41.961][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-08-31 20:31:41.962][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-08-31 20:31:41.963][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-08-31 20:31:41.965][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-08-31 20:31:41.966][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-08-31 20:31:41.967][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-08-31 20:31:41.969][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-08-31 20:31:41.970][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-08-31 20:31:41.971][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-08-31 20:31:41.973][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-08-31 20:31:41.974][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-08-31 20:31:41.975][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-08-31 20:31:41.977][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-08-31 20:31:41.978][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-08-31 20:31:41.979][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-08-31 20:31:41.981][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-31 20:31:41.982][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-31 20:31:41.983][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-08-31 20:31:41.985][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-08-31 20:31:41.986][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-08-31 20:31:41.987][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-08-31 20:31:41.989][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-08-31 20:31:41.990][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-08-31 20:31:41.991][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-08-31 20:31:41.993][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-08-31 20:31:41.994][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-08-31 20:31:41.995][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-08-31 20:31:41.997][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-08-31 20:31:41.998][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-08-31 20:31:41.999][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-08-31 20:31:42.001][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-08-31 20:31:42.002][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-08-31 20:31:42.004][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-08-31 20:31:42.005][initialize] This is biodb version 1.16.0.
biodb.DEBUG[2025-08-31 20:31:42.006][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-08-31 20:31:42.007][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:42.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:42.009][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:42.010][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:42.010][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:42.011][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:42.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:42.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:42.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:42.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:42.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:42.017][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:42.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:42.018][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:42.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:42.020][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:42.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:42.022][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:42.023][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:42.024][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:42.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:42.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:42.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:42.027][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:42.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:42.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:42.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:42.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:42.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:42.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:42.033][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:42.034][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:42.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:42.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:42.037][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:42.038][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:42.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:42.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:42.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:42.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:42.042][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:42.043][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:42.044][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:42.045][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:42.046][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:42.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:42.047][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:42.048][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:42.049][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:42.050][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:42.051][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:42.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:42.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:42.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:42.054][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:42.055][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:42.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:42.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:42.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:42.059][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:42.060][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:42.061][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:42.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:42.063][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:42.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:42.064][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:42.065][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[2025-08-31 20:31:42.066][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:42.067][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:42.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:42.069][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:42.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:42.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:42.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:42.072][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:42.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:42.074][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:42.075][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:42.076][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:42.077][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:42.077][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[2025-08-31 20:31:42.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:42.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:42.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:42.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:42.082][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:42.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:42.084][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[2025-08-31 20:31:42.084][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:42.085][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:42.086][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:42.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:42.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:42.089][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:42.090][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:42.091][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:42.091][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:42.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:42.093][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:42.094][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:42.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:42.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:42.097][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:42.098][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:42.098][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:42.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:42.100][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:42.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:42.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:42.103][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:42.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:42.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:42.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:42.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:42.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:42.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-08-31 20:31:42.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-08-31 20:31:42.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:42.111][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:42.112][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:42.113][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:42.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:42.114][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[2025-08-31 20:31:42.116][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.21-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-08-31 20:31:42.117][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-08-31 20:31:42.119][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:42.120][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-08-31 20:31:42.121][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:42.122][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-08-31 20:31:42.123][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:42.124][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-08-31 20:31:42.125][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:42.126][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-08-31 20:31:42.127][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-08-31 20:31:42.128][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-08-31 20:31:42.129][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:42.130][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-08-31 20:31:42.131][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-08-31 20:31:42.132][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-08-31 20:31:42.132][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-08-31 20:31:42.132][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-08-31 20:31:42.132][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-08-31 20:31:42.132][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-08-31 20:31:42.132][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-08-31 20:31:42.132][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-08-31 20:31:42.132][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-08-31 20:31:42.132][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-08-31 20:31:42.132][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-08-31 20:31:42.132][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-08-31 20:31:42.133][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-08-31 20:31:42.134][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-08-31 20:31:42.134][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-08-31 20:31:42.134][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-08-31 20:31:42.135][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-08-31 20:31:42.136][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:42.137][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:42.138][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-08-31 20:31:42.139][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-08-31 20:31:42.140][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-08-31 20:31:42.141][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-08-31 20:31:42.142][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-08-31 20:31:42.142][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-08-31 20:31:42.149][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-08-31 20:31:42.150][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-08-31 20:31:42.151][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-08-31 20:31:42.152][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-08-31 20:31:42.152][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-08-31 20:31:42.153][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-08-31 20:31:42.155][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-08-31 20:31:42.157][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-08-31 20:31:42.158][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-08-31 20:31:42.160][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-08-31 20:31:42.161][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-08-31 20:31:42.164][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-08-31 20:31:42.165][super$initialize] Register connector chebi with the request scheduler
biodb.DEBUG[2025-08-31 20:31:42.166][private$bdb$getRequestScheduler()$re ...] Register connector chebi.
biodb.DEBUG[2025-08-31 20:31:42.168][private$addConnectorRules] Create new rule for URL "www.ebi.ac.uk" of connector "chebi".
biodb.DEBUG[2025-08-31 20:31:42.169][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-31 20:31:42.170][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-08-31 20:31:42.171][rule$addConnector] Connector "chebi" is already listed in rule "www.ebi.ac.uk".
biodb.DEBUG[2025-08-31 20:31:42.172][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-08-31 20:31:42.173][biodb::testThat]
biodb.INFO [2025-08-31 20:31:42.174][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-08-31 20:31:42.175][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-08-31 20:31:42.176][biodb::testThat]
biodb.DEBUG[2025-08-31 20:31:42.179][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
biodb.DEBUG[2025-08-31 20:31:42.182][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:42.183][cch$loadFileContent] Trying to load 1 files from cache: [1]: "1ad88a023c4ce2bc0629db4acebeee05".
biodb.TRACE[2025-08-31 20:31:42.185][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:42.186][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/1ad88a023c4ce2bc0629db4acebeee05.content".
biodb.DEBUG[2025-08-31 20:31:42.189][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".
biodb.DEBUG[2025-08-31 20:31:42.192][self$getBiodb()$getRequestScheduler( ...] Loading content of request from cache.
biodb.TRACE[2025-08-31 20:31:42.193][cch$loadFileContent] Trying to load 1 files from cache: [1]: "04c26672f8368e71348af4b34238160e".
biodb.TRACE[2025-08-31 20:31:42.194][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:42.196][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/04c26672f8368e71348af4b34238160e.content".
biodb.DEBUG[2025-08-31 20:31:42.199][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-08-31 20:31:42.200][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
biodb.TRACE[2025-08-31 20:31:42.202][cch$loadFileContent] Trying to load 1 files from cache: [1]: "2571".
biodb.TRACE[2025-08-31 20:31:42.203][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-08-31 20:31:42.205][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml".
biodb.DEBUG[2025-08-31 20:31:42.206][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-08-31 20:31:42.208][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-08-31 20:31:42.209][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-08-31 20:31:42.210][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-08-31 20:31:42.211][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:42.212][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:42.216][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:42.217][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:42.218][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:42.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-08-31 20:31:42.223][ef$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:42.224][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:42.225][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.226][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:42.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:42.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.231][ef$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:42.232][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:42.233][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.234][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.235][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-08-31 20:31:42.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-08-31 20:31:42.237][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.239][ef$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:42.240][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:42.241][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.242][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.244][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-08-31 20:31:42.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-08-31 20:31:42.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.248][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-08-31 20:31:42.249][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-08-31 20:31:42.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.250][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.252][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-08-31 20:31:42.253][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-08-31 20:31:42.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.255][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.256][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:42.257][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:42.258][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.259][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.261][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:42.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-08-31 20:31:42.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.265][ef$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:42.266][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:42.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.267][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.269][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-08-31 20:31:42.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-08-31 20:31:42.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.273][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:42.274][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:42.275][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.276][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.277][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:42.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-08-31 20:31:42.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.280][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.281][ef$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:42.282][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:42.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.284][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.286][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-08-31 20:31:42.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-08-31 20:31:42.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.290][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:42.291][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:42.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.293][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.294][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-08-31 20:31:42.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-08-31 20:31:42.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.298][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:42.299][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:42.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.301][ef$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.302][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-08-31 20:31:42.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-08-31 20:31:42.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.306][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:42.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:42.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.310][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:42.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:42.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.314][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:42.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:42.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.318][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-08-31 20:31:42.319][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-08-31 20:31:42.320][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.321][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.322][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:42.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:42.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:42.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:42.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:42.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:42.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:42.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:42.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:42.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:42.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-08-31 20:31:42.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-08-31 20:31:42.343][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-08-31 20:31:42.344][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-08-31 20:31:42.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-08-31 20:31:42.346][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-08-31 20:31:42.349][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-08-31 20:31:42.350][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector chebi from the request scheduler
biodb.INFO [2025-08-31 20:31:42.351][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-08-31 20:31:42.352][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-08-31 20:31:42.353][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-08-31 20:31:42.354][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-08-31 20:31:42.355][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-08-31 20:31:42.356][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-08-31 20:31:42.357][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-08-31 20:31:42.357][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 358 ]
> 
> proc.time()
   user  system elapsed 
 15.009   0.706  17.727

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.8950.0982.056
ChebiEntry0.1350.0030.138