Back to Multiple platform build/check report for BioC 3.22:   simplified   long
A[B]CDEFGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2025-09-26 12:03 -0400 (Fri, 26 Sep 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4831
lconwaymacOS 12.7.1 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4619
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4563
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4563
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 207/2334HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbChebi 1.15.1  (landing page)
Pierrick Roger
Snapshot Date: 2025-09-25 13:45 -0400 (Thu, 25 Sep 2025)
git_url: https://git.bioconductor.org/packages/biodbChebi
git_branch: devel
git_last_commit: b5e26aa
git_last_commit_date: 2025-06-24 10:11:00 -0400 (Tue, 24 Jun 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    ERROR  skipped

CHECK results for biodbChebi on nebbiolo2

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

raw results


Summary

Package: biodbChebi
Version: 1.15.1
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:biodbChebi.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings biodbChebi_1.15.1.tar.gz
StartedAt: 2025-09-25 21:31:10 -0400 (Thu, 25 Sep 2025)
EndedAt: 2025-09-25 21:32:56 -0400 (Thu, 25 Sep 2025)
EllapsedTime: 106.3 seconds
RetCode: 0
Status:   OK  
CheckDir: biodbChebi.Rcheck
Warnings: 0

Command output

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


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

Status: OK

Installation output

biodbChebi.Rcheck/00install.out

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


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

Tests output

biodbChebi.Rcheck/tests/testthat.Rout


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

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

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

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

> # vi: fdm=marker
> # Script needed to run testthat automatically from ‘R CMD check’. See
> # testthat::test_dir documentation.
> library(testthat)
> library(biodbChebi)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbChebi")
biodb.INFO [2025-09-25 21:32:21.034][biodb::testContext]
biodb.INFO [2025-09-25 21:32:21.037][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-25 21:32:21.038][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-09-25 21:32:21.040][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-25 21:32:21.041][biodb::testContext]
biodb.INFO [2025-09-25 21:32:21.049][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-25 21:32:21.052][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-09-25 21:32:21.061][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-25 21:32:21.063][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-25 21:32:21.064][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-25 21:32:21.065][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.066][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.069][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-25 21:32:21.094][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-25 21:32:21.095][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.098][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.099][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-25 21:32:21.100][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-25 21:32:21.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.105][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-25 21:32:21.106][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-25 21:32:21.108][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-25 21:32:21.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.111][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.112][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-25 21:32:21.114][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-25 21:32:21.115][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-25 21:32:21.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.120][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-25 21:32:21.121][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-25 21:32:21.122][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.136][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.137][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-25 21:32:21.138][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-25 21:32:21.139][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-25 21:32:21.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.142][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.143][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-25 21:32:21.144][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-25 21:32:21.145][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.146][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.147][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.148][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-25 21:32:21.150][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-25 21:32:21.151][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-25 21:32:21.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.153][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.154][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.155][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-25 21:32:21.156][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-25 21:32:21.157][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-25 21:32:21.158][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-25 21:32:21.159][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-25 21:32:21.160][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-25 21:32:21.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.164][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-25 21:32:21.166][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-25 21:32:21.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.170][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-25 21:32:21.171][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-25 21:32:21.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.175][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-25 21:32:21.176][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-25 21:32:21.177][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.179][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.180][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-25 21:32:21.181][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-25 21:32:21.182][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-25 21:32:21.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.187][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-25 21:32:21.188][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-25 21:32:21.198][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-25 21:32:21.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.204][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.205][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-25 21:32:21.210][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-25 21:32:21.211][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-25 21:32:21.212][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.218][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[2025-09-25 21:32:21.223][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-25 21:32:21.280][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:21.299][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-25 21:32:21.301][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.302][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-25 21:32:21.303][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.304][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-25 21:32:21.305][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:21.306][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-25 21:32:21.307][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-25 21:32:21.309][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-25 21:32:21.310][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.311][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-25 21:32:21.312][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-25 21:32:21.313][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:21.314][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.315][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-25 21:32:21.315][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-25 21:32:21.315][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-25 21:32:21.315][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-25 21:32:21.315][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-25 21:32:21.317][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-25 21:32:21.318][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:21.319][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:21.320][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-25 21:32:21.321][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:21.322][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:21.323][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-25 21:32:21.324][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:21.325][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-25 21:32:21.326][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-25 21:32:21.327][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:21.328][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:21.330][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-25 21:32:21.332][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:21.333][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-25 21:32:21.334][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.335][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-25 21:32:21.336][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.337][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-25 21:32:21.339][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:21.340][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-25 21:32:21.341][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-25 21:32:21.342][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-25 21:32:21.343][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.344][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-25 21:32:21.345][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-25 21:32:21.347][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:21.348][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.349][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-25 21:32:21.349][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-25 21:32:21.349][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-25 21:32:21.349][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-25 21:32:21.349][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-25 21:32:21.350][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-25 21:32:21.351][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:21.352][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:21.353][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-25 21:32:21.354][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:21.355][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:21.356][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-25 21:32:21.357][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:21.359][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-25 21:32:21.360][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-25 21:32:21.361][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:21.362][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:21.363][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-25 21:32:21.365][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.366][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-25 21:32:21.367][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.369][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-25 21:32:21.370][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.371][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-25 21:32:21.372][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:21.373][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-25 21:32:21.374][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-25 21:32:21.375][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-25 21:32:21.376][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:21.378][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-25 21:32:21.379][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-25 21:32:21.380][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:21.381][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.382][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:21.383][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-25 21:32:21.384][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:21.385][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:21.386][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-25 21:32:21.387][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:21.388][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:21.390][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-25 21:32:21.391][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:21.392][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-25 21:32:21.393][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-25 21:32:21.394][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:21.395][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:21.396][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-25 21:32:21.398][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.399][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-25 21:32:21.401][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.402][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-25 21:32:21.403][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.404][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-25 21:32:21.405][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:21.406][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-25 21:32:21.407][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-25 21:32:21.408][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-25 21:32:21.410][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:21.411][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-25 21:32:21.412][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-25 21:32:21.413][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:21.420][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.422][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:21.423][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-25 21:32:21.424][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:21.425][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:21.426][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-25 21:32:21.427][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:21.428][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:21.429][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-25 21:32:21.430][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:21.431][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-25 21:32:21.432][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-25 21:32:21.433][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:21.434][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:21.439][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-25 21:32:21.440][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.441][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.442][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.443][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.444][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.445][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.446][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.447][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.451][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.DEBUG[2025-09-25 21:32:21.452][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.453][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.454][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.455][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.456][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[2025-09-25 21:32:21.457][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.461][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.462][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.463][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.464][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.466][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.467][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.468][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.469][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.470][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.472][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.473][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.474][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.475][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.476][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.477][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.478][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.479][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.480][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.482][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.483][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.484][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.486][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[2025-09-25 21:32:21.487][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.488][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.489][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.491][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.492][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.493][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.494][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.496][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.497][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.498][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.501][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.502][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.503][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.504][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.506][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.507][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.508][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.509][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.510][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.511][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.512][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.513][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.514][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.516][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.517][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.518][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.519][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.520][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.521][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.522][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[2025-09-25 21:32:21.523][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-25 21:32:21.528][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-25 21:32:21.530][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-25 21:32:21.532][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-25 21:32:21.533][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-25 21:32:21.535][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-25 21:32:21.536][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-25 21:32:21.538][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-25 21:32:21.540][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-25 21:32:21.541][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-25 21:32:21.543][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-25 21:32:21.544][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-25 21:32:21.546][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-25 21:32:21.547][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-25 21:32:21.549][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-25 21:32:21.550][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-25 21:32:21.552][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-25 21:32:21.554][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-25 21:32:21.555][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-25 21:32:21.557][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-25 21:32:21.558][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-25 21:32:21.560][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-25 21:32:21.562][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-25 21:32:21.563][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-25 21:32:21.565][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-25 21:32:21.566][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-25 21:32:21.568][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-25 21:32:21.569][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-25 21:32:21.571][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-25 21:32:21.573][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-25 21:32:21.574][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-25 21:32:21.576][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-25 21:32:21.577][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-25 21:32:21.579][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-25 21:32:21.581][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-25 21:32:21.582][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-25 21:32:21.584][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-25 21:32:21.585][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-25 21:32:21.587][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-25 21:32:21.589][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-25 21:32:21.590][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-25 21:32:21.592][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-25 21:32:21.593][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-25 21:32:21.595][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-25 21:32:21.597][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-25 21:32:21.598][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-25 21:32:21.600][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-25 21:32:21.601][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-25 21:32:21.603][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-25 21:32:21.605][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-25 21:32:21.606][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-25 21:32:21.608][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-25 21:32:21.609][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-25 21:32:21.611][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-25 21:32:21.612][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-25 21:32:21.614][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-25 21:32:21.616][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-25 21:32:21.617][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-25 21:32:21.619][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-25 21:32:21.620][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-25 21:32:21.622][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-25 21:32:21.624][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-25 21:32:21.625][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-25 21:32:21.627][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-25 21:32:21.628][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-25 21:32:21.630][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-25 21:32:21.631][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-25 21:32:21.633][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-25 21:32:21.635][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-25 21:32:21.636][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-25 21:32:21.638][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-25 21:32:21.639][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-25 21:32:21.641][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-25 21:32:21.642][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-25 21:32:21.644][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-25 21:32:21.646][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-25 21:32:21.647][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-25 21:32:21.649][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-25 21:32:21.650][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-25 21:32:21.652][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-25 21:32:21.654][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-25 21:32:21.655][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-25 21:32:21.657][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-25 21:32:21.670][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-25 21:32:21.672][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-25 21:32:21.676][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-25 21:32:21.677][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.679][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.680][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:21.688][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:21.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.690][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.692][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.693][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:21.695][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:21.696][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.699][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:21.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:21.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.704][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.707][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.708][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:21.709][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:21.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.711][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:21.716][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:21.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.720][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.DEBUG[2025-09-25 21:32:21.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:21.723][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:21.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.725][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.728][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.729][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.730][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:21.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:21.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.735][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:21.738][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:21.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:21.745][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:21.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.747][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.748][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.749][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.750][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:21.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:21.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:21.759][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:21.760][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.761][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.763][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[2025-09-25 21:32:21.764][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.765][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:21.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:21.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:21.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:21.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.777][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[2025-09-25 21:32:21.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:21.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:21.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.783][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.785][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:21.787][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:21.788][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.789][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.791][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[2025-09-25 21:32:21.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:21.794][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:21.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:21.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.802][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.803][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:21.805][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-25 21:32:21.824][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-25 21:32:21.827][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:21.828][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-25 21:32:21.829][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.830][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-25 21:32:21.831][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.832][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-25 21:32:21.834][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.835][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-25 21:32:21.836][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-25 21:32:21.837][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-25 21:32:21.838][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.839][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-25 21:32:21.840][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-25 21:32:21.841][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-25 21:32:21.841][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-25 21:32:21.841][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-25 21:32:21.841][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-25 21:32:21.841][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-25 21:32:21.841][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-25 21:32:21.841][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-25 21:32:21.841][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-25 21:32:21.841][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-25 21:32:21.841][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-25 21:32:21.841][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-25 21:32:21.843][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:21.844][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-25 21:32:21.844][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-25 21:32:21.844][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-25 21:32:21.845][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-25 21:32:21.846][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:21.847][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:21.848][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-25 21:32:21.849][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:21.850][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:21.851][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-25 21:32:21.853][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-25 21:32:21.853][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-25 21:32:21.854][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-25 21:32:21.855][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-25 21:32:21.856][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:21.857][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-25 21:32:21.857][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-25 21:32:21.864][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-25 21:32:21.866][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-25 21:32:21.868][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-25 21:32:21.869][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-25 21:32:21.871][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-25 21:32:21.873][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-25 21:32:21.901][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-25 21:32:21.921][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-25 21:32:21.933][biodb::testThat]
biodb.INFO [2025-09-25 21:32:21.934][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-09-25 21:32:21.935][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:21.936][biodb::testThat]
biodb.TRACE[2025-09-25 21:32:21.954][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-09-25 21:32:21.956][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:21.960][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:21.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:21.972][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:21.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:21.987][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:21.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:21.989][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:21.990][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:22.002][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.003][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.004][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.005][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.007][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.026][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:22.027][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:22.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.030][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.061][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:22.063][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:22.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.067][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:22.068][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:22.069][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.070][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.072][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:22.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:22.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.076][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:22.078][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:22.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.080][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.081][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:22.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:22.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.086][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:22.087][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:22.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.089][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.091][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:22.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:22.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.096][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:22.097][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:22.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.099][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.100][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:22.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:22.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.105][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:22.106][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:22.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.108][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.110][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:22.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:22.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.115][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:22.116][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:22.117][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.118][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.120][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:22.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:22.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.124][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:22.125][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:22.126][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.128][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.129][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:22.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:22.132][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.133][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.134][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:22.135][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:22.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.137][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.139][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:22.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:22.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.143][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:22.145][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:22.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.147][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.148][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:22.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:22.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.158][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.167][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.171][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.190][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.240][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.241][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.243][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.245][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:22.247][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-09-25 21:32:22.250][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:22.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:22.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.255][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:22.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:22.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.287][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:22.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:22.289][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.292][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:22.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:22.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.296][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:22.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:22.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.301][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:22.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:22.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.305][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-25 21:32:22.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-25 21:32:22.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.310][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-25 21:32:22.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-25 21:32:22.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.315][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-25 21:32:22.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-25 21:32:22.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.319][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-25 21:32:22.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-25 21:32:22.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.345][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.349][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.372][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.383][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.392][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.397][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.401][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.415][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.416][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.424][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.429][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.431][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.432][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.433][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.448][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.462][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.464][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.466][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.467][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:22.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.480][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:22.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:22.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.485][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:22.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:22.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.490][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:22.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:22.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.494][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:22.496][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:22.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.498][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.499][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:22.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:22.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.513][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:22.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:22.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.518][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:22.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:22.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.523][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:22.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:22.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.528][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:22.529][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:22.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.531][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.532][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:22.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:22.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:22.547][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:22.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.551][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:22.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:22.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.556][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:22.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:22.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.560][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:22.562][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:22.563][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.564][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.565][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:22.566][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:22.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.579][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:22.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:22.581][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.584][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:22.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:22.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:22.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:22.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.593][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:22.594][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:22.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.603][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:22.605][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:22.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.618][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:22.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:22.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.622][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:22.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:22.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.627][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:22.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:22.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.630][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.631][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:22.633][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:22.634][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.635][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.636][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:22.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:22.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.649][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-25 21:32:22.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:22.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.654][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-25 21:32:22.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:22.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.659][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-25 21:32:22.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:22.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.664][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-25 21:32:22.665][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:22.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.667][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.668][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-25 21:32:22.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:22.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.682][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:22.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:22.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.686][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:22.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:22.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.691][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:22.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:22.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.696][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:22.697][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:22.698][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.699][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.700][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:22.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:22.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.714][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:22.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:22.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.719][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:22.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:22.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.724][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:22.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:22.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.730][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:22.731][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:22.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.733][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.734][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:22.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:22.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.747][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:22.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:22.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.752][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:22.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:22.754][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.757][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:22.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:22.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.761][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:22.763][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:22.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.765][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.766][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:22.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:22.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.779][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:22.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:22.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.784][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:22.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:22.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.789][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:22.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:22.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.793][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:22.794][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:22.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.797][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.798][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:22.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:22.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.845][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:22.847][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:22.848][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.849][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.855][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:22.856][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:22.857][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.858][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.864][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:22.865][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:22.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.867][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.873][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:22.874][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:22.876][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.877][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.882][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:22.883][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:22.884][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.885][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.891][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:22.892][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:22.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.894][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.900][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:22.901][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:22.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.903][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.909][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:22.910][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:22.911][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.912][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.917][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-25 21:32:22.919][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:22.920][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.921][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.926][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:22.927][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:22.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.930][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:22.935][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:22.936][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:22.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:22.938][ef$get] fields variable is a list.
biodb.INFO [2025-09-25 21:32:22.947][biodb::testThat]
biodb.INFO [2025-09-25 21:32:22.948][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-09-25 21:32:22.949][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:22.950][biodb::testThat]
biodb.DEBUG[2025-09-25 21:32:22.969][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-09-25 21:32:22.972][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:22.976][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:22.984][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-09-25 21:32:22.986][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:23.017][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:23.019][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:23.021][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:23.022][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:23.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:23.029][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:23.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:23.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:23.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:23.035][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:23.036][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:23.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.039][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:23.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:23.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.074][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:23.075][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:23.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.078][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.079][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:23.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:23.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.084][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:23.085][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:23.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.087][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.089][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:23.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:23.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.093][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:23.094][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:23.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.097][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.098][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:23.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:23.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.103][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:23.104][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:23.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.106][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.108][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:23.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:23.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.112][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:23.114][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:23.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.116][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.118][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:23.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:23.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.123][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:23.124][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:23.125][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.127][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.132][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:23.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:23.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.137][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:23.139][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:23.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.141][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:23.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:23.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.148][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:23.149][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:23.150][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.152][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.153][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:23.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:23.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.158][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:23.159][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:23.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.162][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.165][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:23.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:23.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.170][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:23.171][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:23.172][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.173][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.175][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:23.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:23.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.180][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:23.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:23.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.185][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:23.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:23.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:23.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:23.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.194][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:23.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:23.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.199][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:23.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:23.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.204][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:23.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:23.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.208][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.209][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:23.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:23.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.214][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:23.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:23.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.219][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:23.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:23.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.223][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:23.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:23.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:23.228][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-09-25 21:32:23.229][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-09-25 21:32:23.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-09-25 21:32:23.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.234][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-09-25 21:32:23.235][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-09-25 21:32:23.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-09-25 21:32:23.239][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-09-25 21:32:23.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-25 21:32:23.251][biodb::testThat]
biodb.INFO [2025-09-25 21:32:23.252][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-09-25 21:32:23.253][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:23.254][biodb::testThat]
biodb.TRACE[2025-09-25 21:32:23.258][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:23.259][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:23.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.261][ef$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:23.262][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-09-25 21:32:23.304][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:23.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:23.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.310][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:23.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:23.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.315][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:23.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:23.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:23.327][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-09-25 21:32:23.337][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-25 21:32:23.365][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:23.374][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-25 21:32:23.376][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-25 21:32:23.404][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:23.467][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:23.475][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-25 21:32:23.477][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:23.480][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-09-25 21:32:23.503][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:23.505][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:23.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.507][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.508][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:23.509][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:23.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.511][ef$get] fields variable is a list.
biodb.INFO [2025-09-25 21:32:23.516][biodb::testThat]
biodb.INFO [2025-09-25 21:32:23.518][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-09-25 21:32:23.519][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:23.520][biodb::testThat]
biodb.TRACE[2025-09-25 21:32:23.549][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:23.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:23.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.563][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:23.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:23.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.567][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:23.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:23.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-25 21:32:23.638][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:23.642][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:23.650][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-25 21:32:23.654][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-09-25 21:32:23.673][biodb::testThat]
biodb.INFO [2025-09-25 21:32:23.674][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-09-25 21:32:23.675][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:23.676][biodb::testThat]
biodb.TRACE[2025-09-25 21:32:23.700][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:23.702][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:23.703][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.705][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:23.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:23.708][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.710][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:23.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:23.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.715][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:23.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:23.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.719][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:23.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:23.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.724][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:23.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:23.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.728][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-25 21:32:23.730][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-25 21:32:23.731][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.733][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-25 21:32:23.734][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-25 21:32:23.735][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.737][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-25 21:32:23.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-25 21:32:23.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.742][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-25 21:32:23.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-25 21:32:23.744][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.745][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.779][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:23.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:23.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.784][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:23.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:23.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.788][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:23.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:23.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.793][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:23.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:23.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.797][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:23.799][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:23.800][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:23.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:23.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.806][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-25 21:32:23.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-25 21:32:23.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.811][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-25 21:32:23.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-25 21:32:23.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.816][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-25 21:32:23.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-25 21:32:23.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:23.820][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-25 21:32:23.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-25 21:32:23.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:23.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-25 21:32:23.831][biodb::testThat]
biodb.INFO [2025-09-25 21:32:23.832][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-09-25 21:32:23.833][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:23.834][biodb::testThat]
biodb.INFO [2025-09-25 21:32:23.843][biodb::testThat]
biodb.INFO [2025-09-25 21:32:23.844][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-09-25 21:32:23.845][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:23.847][biodb::testThat]
biodb.INFO [2025-09-25 21:32:23.855][biodb::testThat]
biodb.INFO [2025-09-25 21:32:23.856][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-09-25 21:32:23.857][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:23.858][biodb::testThat]
biodb.DEBUG[2025-09-25 21:32:23.862][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-09-25 21:32:24.701][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-09-25 21:32:26.023][biodb::testThat]
biodb.INFO [2025-09-25 21:32:26.025][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-09-25 21:32:26.026][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:26.028][biodb::testThat]
biodb.TRACE[2025-09-25 21:32:26.036][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:26.041][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:26.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.043][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.049][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:26.050][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:26.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.052][ef$get] fields variable is a list.
biodb.INFO [2025-09-25 21:32:26.055][biodb::testThat]
biodb.INFO [2025-09-25 21:32:26.056][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-09-25 21:32:26.057][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:26.058][biodb::testThat]
biodb.TRACE[2025-09-25 21:32:26.072][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:26.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:26.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.077][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:26.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:26.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.082][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:26.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:26.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-25 21:32:26.255][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:26.260][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:26.266][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-25 21:32:26.268][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-25 21:32:26.422][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:26.427][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:26.432][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-25 21:32:26.434][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-09-25 21:32:26.456][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-25 21:32:26.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-25 21:32:26.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.474][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.476][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.482][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.489][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-25 21:32:26.514][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:26.519][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:26.523][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-25 21:32:26.524][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:26.529][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:26.530][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:26.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:26.540][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:26.542][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:26.543][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:26.545][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:26.546][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-09-25 21:32:26.632][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:26.635][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:26.644][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-09-25 21:32:26.646][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:26.648][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:26.650][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:26.653][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:26.654][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:26.656][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:26.664][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:26.665][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:26.667][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:26.668][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[2025-09-25 21:32:26.672][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:26.674][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:26.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.677][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.679][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:26.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:26.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.696][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:26.698][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:26.699][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.701][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.703][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:26.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:26.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.709][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:26.711][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:26.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.714][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.717][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:26.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:26.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.723][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:26.725][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:26.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.728][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.730][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:26.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:26.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.736][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:26.738][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:26.740][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.741][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.743][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:26.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:26.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.750][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:26.751][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:26.753][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.755][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.757][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:26.759][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.760][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.762][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.764][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:26.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.770][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:26.772][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:26.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.776][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:26.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:26.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.784][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:26.786][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:26.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.789][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.792][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:26.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:26.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.798][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:26.800][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:26.802][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.803][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.805][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:26.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:26.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.812][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:26.814][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:26.815][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.817][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.819][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:26.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:26.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.826][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:26.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:26.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.832][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:26.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:26.835][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.837][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.838][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:26.840][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:26.842][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.843][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.845][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:26.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:26.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.851][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:26.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:26.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.858][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:26.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:26.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:26.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:26.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.871][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:26.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:26.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:26.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:26.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:26.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:26.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:26.891][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-09-25 21:32:26.911][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.918][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.925][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-25 21:32:26.933][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:26.938][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:26.942][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-25 21:32:26.943][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:26.977][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:26.978][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:26.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:26.986][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:26.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:26.988][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:26.989][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:26.990][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:26.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:26.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:26.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.000][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:27.005][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:27.006][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:27.007][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:27.013][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:27.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:27.015][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:27.016][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:27.018][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-09-25 21:32:27.019][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:27.021][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:27.026][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-09-25 21:32:27.027][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:27.029][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:27.030][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:27.032][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:27.033][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:27.034][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:27.040][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:27.041][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:27.042][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:27.043][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:27.046][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.047][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.049][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.056][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:27.057][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:27.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.059][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.061][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:27.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:27.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.065][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:27.067][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:27.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.069][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.071][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:27.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:27.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.075][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:27.077][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:27.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.079][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.080][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:27.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:27.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.085][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:27.086][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:27.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.088][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.090][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:27.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:27.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.095][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:27.096][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:27.097][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.098][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.100][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:27.101][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.102][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.103][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.104][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:27.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.109][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:27.110][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:27.112][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.113][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.114][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:27.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:27.117][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.119][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:27.120][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:27.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.122][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.124][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:27.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:27.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.129][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:27.130][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:27.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.132][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.134][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:27.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:27.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.139][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:27.140][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:27.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.142][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.143][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:27.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:27.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.164][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.173][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.182][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.187][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:27.201][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-09-25 21:32:27.203][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.207][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-25 21:32:27.239][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:27.242][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:27.247][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-25 21:32:27.248][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:27.251][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:27.253][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:27.254][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:27.259][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:27.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:27.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:27.262][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:27.264][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.268][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:27.278][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:27.279][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:27.280][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:27.285][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:27.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:27.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:27.289][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[2025-09-25 21:32:27.290][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-09-25 21:32:27.291][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:27.293][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:27.300][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-09-25 21:32:27.301][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:27.307][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:27.308][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:27.310][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:27.311][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:27.312][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:27.318][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:27.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:27.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:27.321][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:27.325][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.326][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.327][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.328][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.335][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:27.336][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:27.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.338][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.340][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:27.341][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:27.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.343][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.345][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:27.346][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:27.347][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.348][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.350][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:27.351][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:27.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.353][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.355][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:27.356][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:27.357][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.358][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.360][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:27.368][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.369][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.370][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.372][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:27.373][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:27.374][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.375][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.377][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:27.378][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:27.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.380][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.382][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:27.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:27.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.387][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:27.388][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:27.389][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.390][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.391][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:27.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:27.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.396][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:27.397][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:27.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.400][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.401][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.415][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.420][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.425][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.430][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.431][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.444][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:27.448][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-09-25 21:32:27.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.454][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.458][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.459][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.464][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.465][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.469][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:27.474][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:27.475][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:27.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:27.482][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:27.483][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:27.484][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:27.485][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:27.486][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-09-25 21:32:27.487][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:27.489][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:27.497][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-09-25 21:32:27.502][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:27.504][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:27.508][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:27.510][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:27.511][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:27.512][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:27.518][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:27.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:27.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:27.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:27.524][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.525][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.526][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.527][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.534][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:27.535][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:27.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.537][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.539][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:27.540][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:27.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.542][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.544][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:27.545][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:27.546][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.547][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.549][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:27.550][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:27.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.552][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.554][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:27.555][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:27.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.557][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.558][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:27.560][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.562][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.563][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:27.571][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:27.573][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.574][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.575][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:27.577][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:27.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.579][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.581][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:27.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:27.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.586][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:27.587][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:27.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.589][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.591][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:27.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:27.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.596][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:27.597][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:27.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.599][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.605][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.610][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.615][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.635][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.640][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.647][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.648][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.649][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:27.656][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-09-25 21:32:27.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.670][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.677][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.683][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:27.696][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:27.697][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:27.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:27.706][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:27.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:27.709][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:27.710][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:27.712][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-09-25 21:32:27.714][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:27.716][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:27.722][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-09-25 21:32:27.723][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:27.726][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:27.727][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:27.730][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:27.731][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:27.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:27.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:27.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:27.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:27.744][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[2025-09-25 21:32:27.748][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.749][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.752][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.754][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.760][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:27.762][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:27.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.765][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.766][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:27.768][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:27.769][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.771][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.773][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:27.774][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:27.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.777][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.779][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:27.781][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:27.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.784][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.785][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:27.787][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:27.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.789][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.791][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:27.792][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.794][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.795][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.797][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:27.799][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:27.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.802][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.803][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:27.805][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:27.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.815][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.818][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:27.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:27.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.824][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:27.825][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:27.827][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.828][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.830][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:27.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:27.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.836][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:27.837][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:27.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.840][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.842][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.854][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.860][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:27.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.866][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.867][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.884][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.890][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.896][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:27.902][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-09-25 21:32:27.903][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.909][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.915][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.921][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.927][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:27.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:27.933][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:27.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:27.936][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:27.943][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:27.945][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:27.946][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:27.948][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:27.949][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-09-25 21:32:27.951][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:27.953][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:27.960][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-09-25 21:32:27.962][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:27.963][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:27.964][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:27.966][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:27.967][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:27.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:27.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:27.975][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:27.976][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:27.977][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:27.980][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.981][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.983][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.985][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:27.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:27.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.989][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:27.991][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:27.992][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.993][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.994][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:27.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:27.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:27.998][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:27.999][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:28.000][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:28.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.003][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.004][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:28.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:28.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.009][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:28.010][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:28.011][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.012][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.014][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:28.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:28.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.019][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:28.020][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:28.021][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.022][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.024][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:28.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:28.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.028][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:28.030][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:28.038][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.039][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.041][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:28.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:28.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.046][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:28.047][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.050][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.051][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:28.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.056][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:28.057][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:28.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.059][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.061][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:28.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:28.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.065][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:28.067][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:28.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.069][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.071][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:28.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:28.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.075][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:28.077][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:28.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.079][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.081][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:28.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:28.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.085][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:28.087][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:28.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.089][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.090][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:28.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:28.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.095][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.100][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.114][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.119][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.128][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.138][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:28.143][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-09-25 21:32:28.145][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.149][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.154][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:28.158][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:28.159][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:28.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:28.166][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:28.167][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:28.168][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:28.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:28.171][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-09-25 21:32:28.172][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:28.173][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:28.186][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-09-25 21:32:28.187][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:28.193][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:28.194][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:28.196][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:28.197][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:28.198][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:28.204][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:28.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:28.206][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:28.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:28.210][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.211][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.212][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.213][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.218][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.220][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:28.221][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:28.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.223][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.225][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:28.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:28.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.229][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:28.231][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:28.232][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.233][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.235][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:28.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:28.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.247][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:28.248][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:28.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.250][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.252][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:28.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:28.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.256][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:28.258][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:28.259][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.260][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.261][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:28.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:28.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.266][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:28.267][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:28.268][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.269][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.271][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:28.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:28.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.275][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:28.277][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.279][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.280][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:28.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.285][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:28.286][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:28.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.289][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:28.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:28.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.295][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:28.296][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:28.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.299][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.300][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:28.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:28.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.305][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:28.306][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:28.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.308][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.310][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:28.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:28.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.314][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:28.316][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:28.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.318][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.319][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:28.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:28.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.324][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.329][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.334][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.338][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.347][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.352][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.353][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.357][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.361][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.365][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:28.370][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-09-25 21:32:28.371][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.376][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.380][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:28.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:28.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:28.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:28.393][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:28.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:28.395][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:28.396][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:28.398][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-09-25 21:32:28.399][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:28.401][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:28.406][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-09-25 21:32:28.407][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:28.409][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:28.410][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:28.412][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:28.413][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:28.414][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:28.420][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:28.421][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:28.422][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:28.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:28.426][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.428][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.437][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.444][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:28.445][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:28.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.447][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.449][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:28.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:28.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.453][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:28.455][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:28.456][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.457][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.458][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:28.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:28.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.463][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:28.464][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:28.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.467][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.468][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:28.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:28.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.473][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:28.474][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:28.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.477][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.478][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:28.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:28.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.483][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:28.484][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:28.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.487][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.488][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:28.489][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.492][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.493][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:28.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.498][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:28.499][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:28.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.501][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.503][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:28.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:28.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.508][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:28.509][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:28.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.511][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.513][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:28.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:28.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.517][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:28.519][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:28.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.521][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.522][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:28.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:28.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.527][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:28.528][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:28.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.531][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.532][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:28.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:28.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.537][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.542][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.547][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.549][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.550][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.551][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.556][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.560][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.561][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.566][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.570][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.575][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:28.585][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-09-25 21:32:28.586][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.591][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.595][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:28.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:28.601][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:28.602][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:28.608][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:28.609][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:28.610][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:28.611][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[2025-09-25 21:32:28.613][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-09-25 21:32:28.614][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:28.616][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:28.621][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-09-25 21:32:28.630][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:28.632][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:28.634][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:28.636][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:28.637][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:28.638][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:28.644][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:28.645][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:28.646][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:28.647][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:28.650][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.652][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.653][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.654][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.656][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.660][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:28.662][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:28.663][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.664][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.665][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:28.667][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:28.668][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.670][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:28.672][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:28.673][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.674][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.676][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:28.677][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:28.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.680][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:28.682][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:28.683][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.684][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.685][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:28.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:28.688][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.690][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:28.691][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:28.693][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.694][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.695][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:28.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:28.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.700][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:28.702][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:28.703][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.704][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.705][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:28.707][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.708][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.709][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.710][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:28.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.715][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:28.716][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:28.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.719][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.720][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:28.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:28.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.725][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:28.726][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:28.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.728][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.730][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:28.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:28.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.735][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:28.736][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:28.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.738][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.740][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:28.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:28.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.744][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:28.746][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:28.747][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.748][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.749][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:28.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:28.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.759][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.768][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:28.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.775][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.777][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.782][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.787][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.791][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:28.801][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-09-25 21:32:28.802][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.807][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.812][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:28.826][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:28.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:28.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:28.835][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:28.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:28.837][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:28.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:28.840][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-09-25 21:32:28.841][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:28.843][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:28.853][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-09-25 21:32:28.855][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:28.857][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:28.858][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:28.861][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:28.862][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:28.864][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:28.871][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:28.872][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:28.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:28.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:28.878][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.880][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.881][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.883][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:28.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:28.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.890][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:28.892][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:28.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.895][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.896][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:28.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:28.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.902][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:28.904][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:28.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.907][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.909][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:28.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:28.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.914][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:28.916][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:28.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.919][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.921][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:28.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:28.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.928][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:28.930][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:28.931][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.933][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.935][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:28.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:28.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.941][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:28.943][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:28.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.945][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.947][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:28.949][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.951][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.953][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:28.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:28.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.959][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:28.961][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:28.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.963][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.965][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:28.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:28.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.969][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.971][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:28.973][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:28.974][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.975][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.977][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:28.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:28.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.983][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:28.985][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:28.986][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.987][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.989][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:28.991][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:28.992][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:28.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:28.995][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:28.997][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:28.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.000][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.001][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:29.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:29.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.026][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.032][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.038][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.044][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.046][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.050][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.057][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.060][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:29.079][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-09-25 21:32:29.081][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.085][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.087][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.090][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.093][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:29.099][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:29.101][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:29.102][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:29.110][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:29.111][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:29.113][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:29.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:29.116][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-09-25 21:32:29.117][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:29.120][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:29.129][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-09-25 21:32:29.131][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:29.133][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:29.135][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:29.138][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:29.139][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:29.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:29.148][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:29.149][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:29.150][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:29.152][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[2025-09-25 21:32:29.155][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.157][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.158][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.160][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.168][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:29.170][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:29.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.172][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.174][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:29.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:29.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.180][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:29.182][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:29.183][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.184][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.186][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:29.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:29.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.192][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:29.194][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:29.195][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.197][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.199][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:29.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:29.202][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.205][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:29.206][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:29.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.209][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.211][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:29.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:29.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.217][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:29.219][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:29.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.222][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.224][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:29.225][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.227][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.228][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.230][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:29.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.237][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:29.238][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:29.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.241][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.243][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:29.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:29.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.249][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:29.251][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:29.252][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.254][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.256][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:29.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:29.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.262][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:29.264][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:29.265][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.266][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.268][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:29.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:29.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.275][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:29.276][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:29.278][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.279][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.281][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:29.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:29.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.287][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.293][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.299][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.324][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.330][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.336][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.342][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.346][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.348][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:29.354][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-09-25 21:32:29.355][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.357][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.358][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.361][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.367][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:29.373][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:29.374][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:29.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:29.383][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:29.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:29.386][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:29.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:29.389][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-09-25 21:32:29.390][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:29.393][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:29.399][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-09-25 21:32:29.404][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:29.409][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:29.411][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:29.414][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:29.415][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:29.416][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:29.423][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:29.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:29.426][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:29.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:29.431][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.432][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.434][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.435][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.439][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.440][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.443][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:29.445][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:29.446][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.447][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.449][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:29.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:29.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.455][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:29.457][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:29.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.459][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.461][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:29.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:29.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.467][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:29.469][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:29.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.471][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.473][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:29.475][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:29.476][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.479][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:29.481][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:29.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.484][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.485][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:29.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:29.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.491][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:29.493][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:29.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.496][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.498][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:29.499][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.500][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.502][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.504][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:29.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.509][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:29.511][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:29.512][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.514][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.516][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:29.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:29.519][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.520][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.522][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:29.523][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:29.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.526][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.528][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:29.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:29.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.534][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:29.536][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:29.537][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.538][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.540][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:29.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:29.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.547][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:29.548][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:29.550][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.551][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.553][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:29.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:29.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.560][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.569][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.573][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.579][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.590][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.596][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.602][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.609][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.617][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.623][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:29.627][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-09-25 21:32:29.629][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.635][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:29.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:29.648][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:29.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:29.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:29.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:29.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:29.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:29.663][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-09-25 21:32:29.664][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:29.667][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:29.674][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-09-25 21:32:29.675][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:29.678][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:29.679][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:29.682][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:29.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:29.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:29.693][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:29.694][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:29.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:29.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:29.701][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.703][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.704][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.706][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.708][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.714][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:29.716][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:29.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.719][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.721][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:29.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:29.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.725][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.727][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:29.729][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:29.730][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.732][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.734][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:29.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:29.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.740][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:29.742][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:29.743][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.745][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.747][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:29.748][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:29.750][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.751][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.753][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:29.755][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:29.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.758][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.760][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:29.762][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.765][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.767][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:29.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.773][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:29.775][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:29.776][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.778][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.780][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:29.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:29.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.786][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:29.788][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:29.790][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.791][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.793][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:29.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:29.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.800][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:29.802][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:29.803][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.805][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.807][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:29.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:29.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.841][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:29.843][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:29.845][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.846][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.855][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.861][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:29.870][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.879][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.885][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.887][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.892][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.895][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.896][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.898][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.902][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.904][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:29.910][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-09-25 21:32:29.912][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.918][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.921][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.924][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:29.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:29.930][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:29.931][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:29.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:29.939][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:29.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:29.942][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:29.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:29.945][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-09-25 21:32:29.947][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:29.949][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:29.956][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-09-25 21:32:29.958][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:29.960][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:29.961][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:29.964][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:29.965][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:29.967][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:29.974][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:29.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:29.977][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:29.979][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:29.982][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.984][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.985][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.986][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:29.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:29.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.993][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:29.994][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:29.996][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:29.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:29.999][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.001][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:30.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:30.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.007][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:30.009][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:30.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.012][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.014][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:30.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:30.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.020][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:30.021][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:30.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.024][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.026][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:30.028][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:30.029][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.030][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.032][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:30.034][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:30.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.037][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.039][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:30.040][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.043][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.045][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:30.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.051][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:30.053][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:30.054][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.056][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.057][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:30.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:30.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.064][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:30.065][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:30.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.068][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.070][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:30.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:30.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.076][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:30.078][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:30.079][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.080][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.082][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:30.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:30.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.097][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:30.098][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:30.100][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.101][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.103][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.109][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.113][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.121][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.127][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.131][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.133][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.139][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.146][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.152][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.158][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:30.165][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-09-25 21:32:30.166][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.171][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.172][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.179][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:30.186][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:30.187][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:30.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:30.196][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:30.197][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:30.199][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:30.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:30.202][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-09-25 21:32:30.203][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:30.206][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:30.219][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-09-25 21:32:30.221][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:30.227][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:30.229][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:30.232][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:30.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:30.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:30.255][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:30.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:30.261][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:30.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:30.274][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.276][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.287][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.289][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.296][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:30.298][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:30.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.301][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.303][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:30.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:30.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.309][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:30.310][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:30.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.313][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.315][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:30.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:30.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.321][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:30.323][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:30.324][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.326][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.327][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:30.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:30.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.333][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:30.335][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:30.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.338][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.340][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:30.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:30.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.346][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:30.347][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:30.349][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.350][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.352][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:30.354][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.355][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.356][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.358][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:30.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.364][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:30.366][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:30.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.369][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:30.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:30.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.377][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:30.378][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:30.380][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.381][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.391][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:30.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:30.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.398][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:30.400][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:30.401][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.403][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.404][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:30.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:30.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.410][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:30.412][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:30.413][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.415][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.417][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:30.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:30.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.422][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.428][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.434][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.446][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.451][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.452][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.459][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.460][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.461][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.465][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.470][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:30.483][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-09-25 21:32:30.484][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.497][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.498][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:30.503][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:30.504][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:30.506][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:30.513][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:30.515][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:30.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:30.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:30.520][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-09-25 21:32:30.522][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:30.524][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:30.534][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-09-25 21:32:30.536][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:30.539][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:30.540][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:30.543][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:30.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:30.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:30.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:30.556][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:30.557][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:30.559][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:30.563][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.564][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.566][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.567][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.569][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.572][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.576][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:30.577][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:30.579][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.580][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.582][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:30.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:30.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.589][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:30.590][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:30.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.593][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.596][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:30.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:30.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.600][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.602][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:30.604][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:30.605][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.607][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.609][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:30.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:30.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.616][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:30.617][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:30.619][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.620][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.622][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:30.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:30.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.628][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:30.629][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:30.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.632][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.634][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:30.635][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.637][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.638][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.640][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:30.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.655][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:30.657][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:30.658][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.660][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:30.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:30.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.668][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:30.669][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:30.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.672][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.674][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:30.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:30.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.680][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:30.681][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:30.682][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.684][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.686][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:30.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:30.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.692][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:30.693][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:30.695][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.696][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.698][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:30.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:30.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.722][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.727][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.732][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.733][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.737][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.745][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.750][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.756][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:30.762][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-09-25 21:32:30.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.769][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.775][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:30.782][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:30.783][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:30.785][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:30.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:30.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:30.799][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:30.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:30.803][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-09-25 21:32:30.805][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:30.808][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:30.815][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-09-25 21:32:30.817][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:30.818][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:30.820][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:30.822][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:30.823][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:30.824][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:30.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:30.831][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:30.832][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:30.833][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.TRACE[2025-09-25 21:32:30.836][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.837][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.840][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.846][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:30.848][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:30.849][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.850][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.852][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:30.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:30.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.857][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:30.858][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:30.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.860][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.862][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:30.863][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:30.864][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.866][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.867][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:30.868][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:30.869][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.870][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.872][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:30.873][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:30.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.877][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:30.878][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:30.887][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.889][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.891][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:30.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:30.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.897][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:30.898][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:30.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.900][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.902][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:30.903][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.904][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.905][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.907][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:30.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:30.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.912][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:30.913][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:30.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.915][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.916][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:30.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:30.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.921][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:30.923][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:30.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.925][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.926][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:30.928][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:30.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.931][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:30.933][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:30.934][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.935][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.936][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:30.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:30.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.941][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:30.943][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:30.944][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.945][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.946][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:30.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:30.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.951][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.958][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.960][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.965][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.966][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.969][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.971][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:30.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.974][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.979][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.983][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.988][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.993][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:30.995][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:30.996][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:30.997][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:30.999][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.000][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:31.002][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-09-25 21:32:31.003][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.008][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:31.017][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:31.018][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:31.019][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:31.025][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:31.026][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:31.027][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:31.028][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:31.029][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-09-25 21:32:31.031][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:31.032][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:31.040][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-09-25 21:32:31.043][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:31.045][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:31.047][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:31.049][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:31.051][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:31.052][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:31.059][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:31.061][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:31.062][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:31.064][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:31.067][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.069][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.072][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.080][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:31.081][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:31.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.084][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.086][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:31.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:31.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.091][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.092][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:31.094][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:31.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.096][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.106][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:31.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:31.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.112][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:31.114][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:31.115][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.117][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.118][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:31.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:31.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.124][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:31.126][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:31.127][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.128][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.130][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:31.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:31.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.136][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:31.138][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:31.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.140][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.142][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:31.144][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.145][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.146][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.148][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:31.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.154][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:31.156][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:31.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.158][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.160][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:31.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:31.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.166][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:31.168][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:31.169][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.171][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.173][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:31.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:31.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.179][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:31.180][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:31.182][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.183][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.185][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:31.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:31.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.190][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:31.192][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:31.193][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.195][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.197][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:31.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:31.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.203][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:31.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:31.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.209][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:31.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:31.212][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.213][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.215][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.221][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:31.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:31.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.227][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.233][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.236][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.238][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.244][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.256][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:31.261][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-09-25 21:32:31.263][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.267][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.269][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.275][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:31.280][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:31.282][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:31.283][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:31.290][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:31.292][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:31.294][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:31.295][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:31.297][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-09-25 21:32:31.298][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:31.301][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:31.310][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-09-25 21:32:31.312][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:31.314][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:31.316][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:31.318][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:31.320][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:31.321][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:31.328][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:31.330][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:31.331][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:31.333][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:31.336][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.338][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.339][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.341][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.350][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.354][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.357][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:31.359][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:31.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.362][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.363][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:31.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:31.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.370][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:31.371][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:31.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.374][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.376][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:31.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:31.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.382][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:31.383][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:31.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.386][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.388][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:31.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:31.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.393][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:31.395][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:31.396][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.398][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.400][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:31.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:31.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.406][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:31.407][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:31.409][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.410][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.412][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:31.414][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.417][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.418][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:31.420][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.425][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:31.426][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:31.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.429][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.431][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:31.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:31.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.437][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:31.439][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:31.440][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.441][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.443][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:31.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:31.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.450][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:31.451][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:31.453][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.454][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.456][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:31.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:31.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.462][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:31.464][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:31.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.466][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.468][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:31.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:31.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.474][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:31.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:31.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.480][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:31.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:31.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.486][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.492][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:31.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:31.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.504][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.510][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.517][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.518][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.529][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:31.535][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-09-25 21:32:31.536][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.542][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.548][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:31.554][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:31.555][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:31.557][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:31.564][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:31.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:31.567][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:31.568][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:31.570][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-09-25 21:32:31.572][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:31.574][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:31.582][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-09-25 21:32:31.588][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:31.590][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:31.592][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:31.602][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:31.604][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:31.605][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:31.621][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:31.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:31.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:31.629][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:31.636][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.638][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.646][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.652][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.663][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:31.665][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:31.666][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.668][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.670][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:31.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:31.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.676][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:31.677][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:31.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.680][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.682][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:31.684][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:31.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.687][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.689][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:31.690][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:31.692][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.693][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.695][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:31.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:31.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.702][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:31.704][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:31.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.707][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.708][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:31.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:31.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.715][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:31.716][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:31.717][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.719][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.721][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:31.722][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.724][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.725][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.727][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:31.729][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.730][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.733][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:31.735][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:31.736][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.738][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.739][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:31.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:31.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.745][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:31.747][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:31.749][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.750][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.752][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:31.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:31.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.758][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:31.760][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:31.761][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.763][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.764][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:31.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:31.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.771][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:31.772][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:31.774][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.775][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.777][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:31.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:31.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.783][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:31.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:31.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.789][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:31.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:31.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.794][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.801][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:31.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:31.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.813][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.818][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.819][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.826][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.831][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.833][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.834][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.836][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.837][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.839][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.842][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:31.843][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-09-25 21:32:31.845][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:31.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:31.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:31.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:31.865][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:31.880][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:31.882][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:31.884][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:31.885][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:31.887][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-09-25 21:32:31.888][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:31.891][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:31.899][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-09-25 21:32:31.904][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:31.909][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:31.911][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:31.917][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:31.919][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:31.925][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:31.940][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:31.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:31.944][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:31.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:31.948][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.950][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.952][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:31.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:31.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.959][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:31.961][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:31.962][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.963][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.965][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:31.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:31.972][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.975][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:31.976][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:31.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.978][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.980][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:31.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:31.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.986][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:31.987][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:31.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.990][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.991][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:31.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:31.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:31.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:31.997][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:31.998][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:31.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.000][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.002][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:32.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:32.005][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.006][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.007][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:32.009][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:32.010][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.011][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.013][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:32.014][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.017][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.018][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:32.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.024][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:32.025][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:32.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.028][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.029][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:32.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:32.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.038][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:32.039][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:32.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.042][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.043][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:32.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:32.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.048][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:32.050][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:32.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.052][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.053][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:32.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:32.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.058][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:32.059][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:32.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.062][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.063][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:32.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:32.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.068][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:32.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:32.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:32.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:32.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.077][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:32.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:32.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.082][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:32.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:32.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.087][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:32.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:32.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.092][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:32.093][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:32.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.096][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:32.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:32.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.101][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:32.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:32.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.105][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:32.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:32.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.110][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:32.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:32.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:32.123][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-09-25 21:32:32.125][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.137][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-25 21:32:32.175][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:32.180][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:32.186][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-25 21:32:32.188][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:32.193][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:32.195][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:32.197][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:32.205][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:32.207][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:32.208][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:32.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:32.212][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.219][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.224][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.225][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.227][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:32.231][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:32.233][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:32.234][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:32.242][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:32.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:32.245][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:32.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:32.248][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.254][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.267][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:32.279][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:32.280][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:32.281][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:32.288][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:32.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:32.291][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:32.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:32.294][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.300][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.314][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.315][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.318][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:32.324][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:32.326][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:32.327][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:32.334][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:32.336][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:32.337][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:32.339][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:32.340][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.342][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.345][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.346][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.353][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.359][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.364][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:32.371][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:32.372][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:32.373][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:32.389][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:32.391][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:32.393][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:32.394][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:32.396][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.402][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.408][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:32.414][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:32.415][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:32.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:32.424][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:32.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:32.427][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:32.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:32.430][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.436][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:32.448][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:32.450][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:32.451][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:32.459][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:32.460][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:32.462][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:32.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:32.465][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.470][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.474][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:32.479][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:32.480][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:32.481][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:32.487][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:32.488][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:32.489][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:32.490][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:32.491][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.495][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.496][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:32.505][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:32.506][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:32.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:32.513][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:32.514][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:32.515][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:32.516][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:32.518][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.522][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.527][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:32.532][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:32.533][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:32.534][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:32.539][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:32.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:32.542][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:32.543][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:32.544][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.554][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:32.558][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:32.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:32.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:32.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:32.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:32.568][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:32.569][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:32.571][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.580][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:32.585][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:32.586][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:32.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:32.600][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:32.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:32.603][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:32.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:32.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.614][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:32.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:32.620][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:32.621][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:32.627][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:32.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:32.629][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:32.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:32.632][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.636][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:32.646][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:32.647][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:32.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:32.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:32.655][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:32.656][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:32.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:32.663][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.667][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.674][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:32.680][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:32.681][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:32.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:32.690][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:32.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:32.693][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:32.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:32.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.703][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.709][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:32.715][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:32.716][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:32.718][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:32.725][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:32.726][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:32.728][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:32.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:32.731][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.735][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.737][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.739][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.740][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.743][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:32.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:32.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:32.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:32.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:32.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:32.762][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:32.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:32.765][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.771][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.776][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.777][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.779][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:32.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:32.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:32.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:32.794][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:32.795][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:32.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:32.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:32.800][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.804][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.806][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.812][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.815][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:32.818][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:32.827][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:32.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:32.837][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:32.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:32.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:32.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:32.844][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.846][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.851][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.857][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:32.864][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:32.865][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:32.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:32.873][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:32.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:32.876][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:32.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:32.880][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.886][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.891][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.892][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:32.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:32.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:32.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:32.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:32.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:32.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:32.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.938][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:32.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:32.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:32.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:32.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:32.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:32.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-25 21:32:32.998][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:33.002][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:33.008][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-09-25 21:32:33.010][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-25 21:32:33.015][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:33.020][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:33.024][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-09-25 21:32:33.025][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:33.028][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:33.029][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:33.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:33.036][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:33.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:33.039][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:33.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:33.041][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-09-25 21:32:33.042][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:33.044][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:33.055][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-09-25 21:32:33.057][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:33.063][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:33.064][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:33.067][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:33.068][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:33.069][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:33.076][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:33.078][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:33.079][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:33.080][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:33.084][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:33.093][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:33.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.097][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.099][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:33.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:33.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.105][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:33.106][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:33.107][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.109][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.110][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:33.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:33.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.116][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:33.118][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:33.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.120][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.122][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:33.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:33.125][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.126][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.128][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:33.129][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:33.131][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.132][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.134][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:33.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:33.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.138][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.140][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:33.141][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:33.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.144][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.146][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:33.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:33.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.150][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.152][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:33.153][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:33.154][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.156][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.158][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:33.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:33.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.163][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:33.165][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:33.166][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.168][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.170][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:33.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:33.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.176][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.177][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.178][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.180][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.182][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.187][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:33.189][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:33.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.192][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.194][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:33.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:33.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.200][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:33.201][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:33.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.204][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.206][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:33.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:33.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.211][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:33.213][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:33.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.216][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.217][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:33.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:33.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.224][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:33.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:33.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:33.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:33.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.235][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:33.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:33.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.241][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:33.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:33.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.246][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.247][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:33.249][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:33.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.254][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:33.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:33.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.260][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:33.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:33.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:33.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:33.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.274][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:33.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:33.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.281][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:33.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:33.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.287][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:33.288][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-09-25 21:32:33.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.298][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.305][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:33.313][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:33.314][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:33.316][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:33.325][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:33.327][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:33.329][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:33.331][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:33.343][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.352][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:33.365][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:33.366][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:33.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:33.375][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:33.376][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:33.378][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:33.379][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:33.380][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-09-25 21:32:33.382][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:33.384][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:33.394][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-09-25 21:32:33.396][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:33.402][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:33.408][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:33.415][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:33.416][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:33.417][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:33.428][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:33.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:33.431][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:33.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:33.436][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:33.438][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:33.439][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.441][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.443][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:33.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:33.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.449][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:33.450][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:33.452][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.453][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.455][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:33.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:33.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.462][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:33.463][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:33.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.466][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.468][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:33.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:33.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.474][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:33.476][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:33.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.478][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.480][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:33.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:33.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.487][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:33.488][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:33.489][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.491][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.492][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:33.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:33.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.498][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:33.500][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:33.501][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.503][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.505][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:33.506][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:33.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.509][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.511][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:33.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:33.514][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.515][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.517][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.519][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.520][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.521][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.523][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.530][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:33.531][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:33.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.534][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.536][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:33.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:33.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.542][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:33.544][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:33.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.546][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.548][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:33.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:33.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.554][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:33.556][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:33.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.559][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.561][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:33.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:33.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.565][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:33.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:33.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.570][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:33.572][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:33.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.576][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:33.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:33.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.581][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:33.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:33.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.587][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:33.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:33.590][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.593][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:33.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:33.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:33.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:33.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:33.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:33.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.621][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:33.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:33.624][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.627][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:33.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:33.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:33.632][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-09-25 21:32:33.634][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.640][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.643][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.644][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.646][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-25 21:32:33.679][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:33.683][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:33.689][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-25 21:32:33.690][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:33.695][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:33.696][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:33.698][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:33.705][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:33.706][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:33.707][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:33.709][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:33.711][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.717][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.723][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:33.729][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:33.731][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:33.732][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:33.740][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:33.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:33.742][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:33.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:33.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.752][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.758][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.764][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.769][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:33.775][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:33.776][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:33.777][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:33.784][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:33.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:33.786][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:33.787][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:33.789][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.790][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.793][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.795][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.796][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.798][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.801][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.802][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.804][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.807][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.808][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.811][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:33.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:33.814][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:33.815][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:33.820][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:33.821][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:33.822][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:33.823][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:33.825][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.826][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.843][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.844][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.847][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.852][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:33.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:33.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:33.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:33.864][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:33.866][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:33.867][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:33.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:33.869][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.881][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.882][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:33.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:33.885][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:33.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:33.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:33.894][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:33.895][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:33.896][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:33.898][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.901][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.905][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.912][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:33.917][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:33.918][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:33.920][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:33.927][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:33.929][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:33.930][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:33.932][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:33.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.946][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:33.954][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:33.955][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:33.957][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:33.965][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:33.966][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:33.968][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:33.969][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:33.971][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:33.984][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:33.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:33.988][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:33.990][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:33.991][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:33.992][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.003][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.006][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.007][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.009][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.010][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.012][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.018][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.024][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.025][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.034][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.036][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.037][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.039][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.040][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.047][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.053][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.059][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.060][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.077][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.083][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.085][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.091][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.097][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.104][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.112][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.115][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.117][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.118][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.124][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.130][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.136][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.138][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.139][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.146][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.148][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.157][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.163][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.168][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.169][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.171][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.177][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.180][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.183][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.189][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.195][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.204][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.211][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.214][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.215][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.235][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.236][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.237][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.247][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.248][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.250][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.256][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.262][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.268][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.269][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.271][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.278][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.279][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.281][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.282][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.284][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.290][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.296][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.302][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.303][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.304][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.322][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.323][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.331][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.337][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.343][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.344][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.345][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.352][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.354][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.355][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.356][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.358][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.371][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.377][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.378][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.379][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.386][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.389][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.393][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.399][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.405][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-25 21:32:34.438][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:34.442][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:34.448][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-25 21:32:34.450][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:34.455][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.456][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.457][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.465][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.466][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.467][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.469][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.471][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.477][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.483][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.489][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.490][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.492][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.499][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.502][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.504][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.512][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.518][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.525][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.530][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.532][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.538][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.549][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.551][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.553][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.574][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.580][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.588][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.600][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.602][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.603][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.610][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.613][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.617][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.623][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.629][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.635][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.638][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.641][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.647][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.649][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.650][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.657][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.662][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.670][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.676][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.683][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.684][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.693][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.695][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.696][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.697][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.703][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.708][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.712][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.713][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.714][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.720][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.723][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.725][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.730][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.739][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.740][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.741][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.746][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.749][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.765][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.766][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.767][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.773][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.777][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.778][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.780][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.781][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.782][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.795][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.800][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.801][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.802][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.807][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.809][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.810][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.811][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.821][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.824][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.827][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.828][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.829][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.835][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.837][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.838][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.839][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.846][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.851][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.865][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.867][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.868][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.869][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.870][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.876][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.877][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.878][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.881][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.887][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.888][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.889][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.895][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.897][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.898][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.899][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.901][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.911][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.921][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.934][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.935][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.942][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.944][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.947][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.961][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.962][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.963][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.969][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.970][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.971][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.972][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.973][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.978][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:34.983][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:34.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:34.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:34.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:34.988][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:34.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:34.995][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:34.996][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:34.997][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:34.998][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:34.999][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.003][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.004][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.023][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:35.029][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:35.030][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:35.031][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:35.036][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:35.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:35.039][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:35.040][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:35.041][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.046][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.048][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:35.055][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:35.057][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:35.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:35.063][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:35.065][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:35.066][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:35.067][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:35.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:35.083][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:35.084][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:35.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:35.091][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:35.092][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:35.093][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:35.094][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:35.096][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.098][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.099][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.101][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:35.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:35.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:35.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:35.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:35.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:35.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:35.124][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:35.125][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.136][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.161][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-25 21:32:35.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-25 21:32:35.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-25 21:32:35.177][biodb::testThat]
biodb.INFO [2025-09-25 21:32:35.178][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-09-25 21:32:35.180][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:35.181][biodb::testThat]
biodb.TRACE[2025-09-25 21:32:35.186][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-25 21:32:35.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-25 21:32:35.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.192][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.198][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.206][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.207][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.210][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:35.221][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:35.223][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:35.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:35.231][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:35.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:35.242][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:35.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-25 21:32:35.248][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:35.251][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:35.254][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-25 21:32:35.256][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:35.259][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:35.260][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:35.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:35.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:35.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:35.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:35.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:35.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.279][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.284][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-25 21:32:35.291][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:35.295][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:35.298][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-25 21:32:35.300][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:35.303][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:35.304][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:35.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:35.313][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:35.314][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:35.315][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:35.317][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:35.319][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.334][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.335][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:35.336][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:35.338][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:35.339][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:35.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:35.347][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:35.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:35.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:35.351][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.352][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.356][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.362][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.363][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:35.364][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:35.367][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-25 21:32:35.370][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:35.371][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:35.372][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:35.381][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:35.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:35.385][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:35.386][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:35.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.394][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.400][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:35.402][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-25 21:32:35.403][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-25 21:32:35.404][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-25 21:32:35.405][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:35.407][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.408][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.410][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.411][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.412][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.414][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.417][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.418][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:35.419][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:35.421][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.422][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.425][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.426][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-25 21:32:35.427][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.433][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.438][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.457][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-25 21:32:35.459][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:35.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:35.462][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:35.477][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:35.478][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:35.480][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:35.481][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:35.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.488][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.493][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:35.495][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-25 21:32:35.496][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-25 21:32:35.497][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-25 21:32:35.499][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:35.500][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.501][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.504][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.505][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.507][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.509][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.510][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:35.516][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:35.517][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.522][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.525][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.530][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-25 21:32:35.532][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.538][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.544][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.551][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-25 21:32:35.552][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:35.557][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:35.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:35.568][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:35.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:35.575][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:35.576][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:35.578][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.582][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.589][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:35.590][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-25 21:32:35.592][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-25 21:32:35.593][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-25 21:32:35.595][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:35.596][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.598][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.599][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.601][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.602][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.604][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.606][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.607][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.609][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:35.610][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:35.612][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.613][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.616][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.618][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-25 21:32:35.620][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.629][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.632][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:35.635][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.639][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-25 21:32:35.640][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-25 21:32:35.642][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-25 21:32:35.657][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.664][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.669][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.671][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.677][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.680][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:35.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:35.792][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:35.794][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:35.802][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:35.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:35.805][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:35.807][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-25 21:32:35.811][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:35.816][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:35.820][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-25 21:32:35.822][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-25 21:32:35.826][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:35.829][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:35.832][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-25 21:32:35.833][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:35.836][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:35.837][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:35.838][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:35.844][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:35.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:35.847][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:35.848][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:35.850][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.856][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.861][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:35.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:35.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:35.868][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:35.874][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:35.875][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:35.877][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:35.878][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:35.879][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.881][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.882][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.883][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.884][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.887][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.888][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.889][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:35.894][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:35.895][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:35.896][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:35.902][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:35.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:35.905][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:35.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:35.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.912][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.915][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:35.917][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:35.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:35.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:35.961][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-25 21:32:35.991][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:35.992][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:35.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:36.000][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:36.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:36.002][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:36.003][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:36.005][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.010][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.015][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.016][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-25 21:32:36.017][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-25 21:32:36.018][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-25 21:32:36.019][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.021][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.022][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.023][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.024][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.025][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.026][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.029][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.030][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.031][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.032][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.033][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.035][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.036][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.037][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-25 21:32:36.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.043][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.048][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.053][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-25 21:32:36.054][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:36.055][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:36.056][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:36.062][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:36.063][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:36.064][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:36.065][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:36.081][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.087][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.127][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.128][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-25 21:32:36.130][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-25 21:32:36.131][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-25 21:32:36.132][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.133][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.134][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.136][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.137][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.138][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.139][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.141][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.143][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.156][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.157][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.158][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.159][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.161][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.162][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-25 21:32:36.163][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.164][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.168][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.173][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.175][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.178][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-25 21:32:36.179][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:36.180][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:36.181][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:36.187][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:36.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:36.189][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:36.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:36.192][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.197][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.201][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.202][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-25 21:32:36.203][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-25 21:32:36.204][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-25 21:32:36.206][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.207][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.208][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.210][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.211][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.213][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.215][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.216][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.217][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.219][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.220][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.222][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.223][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-25 21:32:36.225][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.227][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.228][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.230][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.231][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.235][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.243][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-25 21:32:36.244][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-25 21:32:36.246][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-25 21:32:36.260][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-25 21:32:36.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-25 21:32:36.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-25 21:32:36.270][biodb::testThat]
biodb.INFO [2025-09-25 21:32:36.271][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-09-25 21:32:36.272][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:36.273][biodb::testThat]
biodb.TRACE[2025-09-25 21:32:36.277][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-25 21:32:36.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-25 21:32:36.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.282][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.297][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:36.308][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:36.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:36.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:36.319][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:36.321][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:36.330][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:36.332][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-25 21:32:36.337][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:36.341][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:36.343][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-25 21:32:36.345][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:36.348][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:36.350][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:36.351][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:36.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:36.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:36.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:36.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:36.364][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.370][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.371][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.372][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-25 21:32:36.382][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:36.386][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:36.389][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-25 21:32:36.390][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:36.394][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:36.395][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:36.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:36.404][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:36.406][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:36.407][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:36.409][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:36.410][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.418][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.419][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.422][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:36.428][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:36.430][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:36.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:36.438][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:36.439][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:36.441][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:36.442][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:36.444][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.450][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:36.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:36.462][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-25 21:32:36.464][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:36.465][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:36.467][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:36.474][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:36.475][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:36.477][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:36.478][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:36.480][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.486][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.492][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.493][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-25 21:32:36.495][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-25 21:32:36.496][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-25 21:32:36.497][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.499][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.501][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.502][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.503][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.505][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.506][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.509][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.510][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.512][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.513][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.515][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.518][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.519][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-25 21:32:36.521][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.524][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.527][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.533][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.537][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.539][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-25 21:32:36.540][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:36.542][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:36.543][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:36.550][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:36.552][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:36.553][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:36.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:36.557][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.571][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.578][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.579][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-25 21:32:36.581][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-25 21:32:36.582][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-25 21:32:36.584][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.585][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.587][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.589][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.590][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.592][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.593][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.594][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.595][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.596][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.597][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.599][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.600][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.601][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.602][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-25 21:32:36.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.607][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.608][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.613][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.618][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-25 21:32:36.619][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:36.621][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:36.622][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:36.628][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:36.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:36.631][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:36.632][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:36.634][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.638][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.639][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.645][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.646][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-25 21:32:36.647][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-25 21:32:36.648][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-25 21:32:36.649][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.651][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.653][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.654][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.656][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.657][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.658][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.661][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.662][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.663][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.665][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.666][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.667][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.669][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.670][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-25 21:32:36.672][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.678][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.679][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.682][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.691][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-25 21:32:36.692][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-25 21:32:36.693][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-25 21:32:36.706][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.711][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.712][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.714][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.718][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.724][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.725][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:36.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:36.734][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:36.735][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:36.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:36.742][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:36.743][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:36.744][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-25 21:32:36.748][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:36.751][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:36.753][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-25 21:32:36.754][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-25 21:32:36.758][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:36.761][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:36.764][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-25 21:32:36.765][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:36.768][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:36.769][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:36.770][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:36.776][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:36.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:36.788][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:36.789][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:36.791][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.797][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.801][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:36.807][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:36.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:36.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:36.830][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:36.832][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:36.833][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:36.841][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:36.842][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.853][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.860][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.861][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.867][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:36.873][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:36.874][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:36.875][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:36.885][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:36.886][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:36.887][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:36.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:36.893][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.899][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.900][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.901][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.915][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:36.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:36.924][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-25 21:32:36.926][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:36.931][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:36.932][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:36.937][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:36.938][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:36.939][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:36.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:36.946][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.960][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.961][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.962][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.964][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.965][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-25 21:32:36.970][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-25 21:32:36.971][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-25 21:32:36.974][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.975][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.976][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.982][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.983][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.984][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.989][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.990][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:36.993][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:36.994][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.996][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:36.997][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.998][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:36.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.000][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.002][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-25 21:32:37.003][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.013][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.019][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-25 21:32:37.020][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:37.021][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:37.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:37.028][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:37.030][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:37.031][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:37.032][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:37.033][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.039][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.044][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.045][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-25 21:32:37.046][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-25 21:32:37.047][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-25 21:32:37.048][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.050][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.051][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.054][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.056][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.057][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.058][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.059][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.061][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.062][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.063][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.065][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.067][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.068][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-25 21:32:37.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.083][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.088][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.093][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-25 21:32:37.095][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:37.096][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:37.097][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:37.102][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:37.104][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:37.105][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:37.106][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:37.107][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.116][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.121][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.122][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-25 21:32:37.123][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-25 21:32:37.124][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-25 21:32:37.125][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.126][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.128][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.130][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.131][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.132][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.133][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.135][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.136][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.137][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.138][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.139][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.140][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.141][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.143][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-25 21:32:37.144][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.155][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.156][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.158][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-25 21:32:37.159][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-25 21:32:37.160][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-25 21:32:37.170][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-25 21:32:37.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-25 21:32:37.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-25 21:32:37.178][biodb::testThat]
biodb.INFO [2025-09-25 21:32:37.179][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-09-25 21:32:37.180][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:37.182][biodb::testThat]
biodb.TRACE[2025-09-25 21:32:37.185][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-25 21:32:37.186][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-25 21:32:37.187][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.190][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.194][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.199][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.200][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.202][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.204][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.205][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.206][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:37.213][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:37.214][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:37.215][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:37.221][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:37.222][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:37.223][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:37.224][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-25 21:32:37.227][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:37.230][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:37.233][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-25 21:32:37.234][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:37.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:37.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:37.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:37.244][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:37.245][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:37.246][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:37.247][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:37.249][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.253][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.258][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-25 21:32:37.264][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:37.275][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:37.278][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-25 21:32:37.279][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:37.282][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:37.284][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:37.285][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:37.290][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:37.291][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:37.292][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:37.293][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:37.295][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.299][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.302][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.303][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.304][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.308][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:37.309][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:37.310][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:37.311][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:37.316][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:37.317][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:37.319][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:37.320][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:37.321][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.326][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.332][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:37.333][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:37.336][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-25 21:32:37.338][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:37.339][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:37.340][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:37.345][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:37.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:37.348][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:37.349][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:37.350][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.354][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.355][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.360][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.361][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-25 21:32:37.362][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-25 21:32:37.363][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-25 21:32:37.364][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.365][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.367][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.369][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.370][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.371][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.373][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.374][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.375][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.376][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.378][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.380][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.381][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-25 21:32:37.382][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.386][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.390][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.394][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-25 21:32:37.395][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:37.396][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:37.397][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:37.403][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:37.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:37.405][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:37.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:37.407][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.412][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.417][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.418][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-25 21:32:37.419][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-25 21:32:37.420][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-25 21:32:37.421][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.423][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.424][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.425][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.426][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.427][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.428][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.429][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.431][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.432][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.433][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.434][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.435][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.437][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.438][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-25 21:32:37.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.443][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.444][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.462][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-25 21:32:37.463][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:37.464][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:37.465][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:37.471][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:37.472][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:37.473][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:37.474][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:37.475][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.480][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.484][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.485][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-25 21:32:37.486][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-25 21:32:37.487][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-25 21:32:37.488][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.489][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.491][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.492][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.493][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.494][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.495][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.497][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.498][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.500][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.501][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.502][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.504][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.505][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-25 21:32:37.506][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.510][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.511][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.515][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.520][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-25 21:32:37.521][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-25 21:32:37.522][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-25 21:32:37.543][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.548][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.555][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.557][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:37.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:37.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:37.568][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:37.574][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:37.575][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:37.576][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:37.577][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-25 21:32:37.580][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:37.583][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:37.585][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-25 21:32:37.586][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-25 21:32:37.590][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:37.593][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:37.596][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-25 21:32:37.597][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:37.599][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:37.600][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:37.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:37.606][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:37.607][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:37.608][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:37.609][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:37.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:37.623][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:37.624][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:37.625][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:37.631][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:37.640][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:37.641][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:37.642][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:37.644][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.649][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.654][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:37.658][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:37.659][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:37.660][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:37.668][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:37.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:37.670][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:37.671][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:37.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.677][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.682][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:37.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.685][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:37.687][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-25 21:32:37.689][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:37.690][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:37.691][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:37.698][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:37.699][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:37.700][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:37.702][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:37.704][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.710][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.716][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.717][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-25 21:32:37.719][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-25 21:32:37.720][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-25 21:32:37.722][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.723][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.725][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.728][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.729][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.731][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.734][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.735][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.737][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.738][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.740][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.741][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.742][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.744][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-25 21:32:37.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.759][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.764][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-25 21:32:37.766][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:37.767][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:37.768][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:37.775][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:37.777][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:37.778][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:37.779][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:37.781][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.783][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.786][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.787][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.789][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.790][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.793][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.795][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-25 21:32:37.796][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-25 21:32:37.798][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-25 21:32:37.799][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.801][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.802][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.804][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.805][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.807][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.808][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.811][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.813][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.814][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.816][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.817][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.819][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.820][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.822][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-25 21:32:37.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.825][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.827][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.828][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.830][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.836][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.842][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-25 21:32:37.844][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:37.845][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:37.847][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:37.854][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:37.862][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:37.864][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:37.865][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:37.867][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.880][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.881][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-25 21:32:37.883][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-25 21:32:37.884][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-25 21:32:37.886][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.887][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.889][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.891][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.893][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.895][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.896][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.897][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.899][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.900][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-25 21:32:37.902][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.903][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.905][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.906][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.908][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-25 21:32:37.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.914][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.915][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.917][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.918][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.920][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.921][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:37.924][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:37.928][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-25 21:32:37.929][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-25 21:32:37.931][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-25 21:32:37.959][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-25 21:32:37.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-25 21:32:37.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:37.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-25 21:32:37.969][biodb::testThat]
biodb.INFO [2025-09-25 21:32:37.971][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-09-25 21:32:37.972][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:37.974][biodb::testThat]
biodb.DEBUG[2025-09-25 21:32:37.976][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-09-25 21:32:37.978][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:37.980][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:37.986][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-09-25 21:32:37.988][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:37.992][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:37.994][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:37.996][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:37.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:37.999][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:38.005][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:38.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:38.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:38.009][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:38.013][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.015][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.017][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.019][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.024][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.025][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:38.027][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:38.028][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.030][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.033][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:38.035][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:38.036][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.038][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.040][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:38.042][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:38.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.044][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.046][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:38.048][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:38.049][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.050][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.052][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:38.053][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:38.055][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.056][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.058][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:38.059][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:38.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.062][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.063][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:38.065][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:38.066][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.067][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.069][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:38.070][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:38.072][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.073][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.075][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:38.076][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:38.077][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.079][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.080][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:38.082][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:38.083][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.084][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.089][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.099][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.124][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.126][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.137][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.143][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.149][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.151][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.152][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.155][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.161][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.170][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:38.174][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-09-25 21:32:38.175][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-09-25 21:32:38.187][biodb::testThat]
biodb.INFO [2025-09-25 21:32:38.189][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-09-25 21:32:38.190][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:38.192][biodb::testThat]
biodb.DEBUG[2025-09-25 21:32:38.205][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-09-25 21:32:38.207][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-09-25 21:32:38.208][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-09-25 21:32:38.210][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:38.214][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-09-25 21:32:38.219][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-09-25 21:32:38.224][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-09-25 21:32:38.225][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:38.227][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-09-25 21:32:38.228][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:38.230][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:38.231][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:38.232][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:38.238][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:38.240][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:38.241][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:38.242][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:38.245][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.246][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.247][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.248][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.250][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.255][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:38.256][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:38.257][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.258][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.260][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:38.261][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:38.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.263][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.265][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:38.266][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:38.267][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.268][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.270][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:38.271][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:38.272][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.273][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.275][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:38.276][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:38.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.278][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.280][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:38.281][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:38.282][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.283][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.285][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:38.286][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:38.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.288][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.290][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:38.291][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:38.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.293][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.295][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:38.296][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:38.297][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.299][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.300][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:38.302][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:38.303][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.304][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.305][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.307][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.310][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.314][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.315][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.320][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.325][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.339][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.346][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.347][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.348][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:38.351][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:38.352][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:38.353][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:38.359][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:38.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:38.361][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:38.362][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:38.366][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.367][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.368][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.369][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.371][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.376][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:38.377][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:38.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.379][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.381][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:38.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:38.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.386][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:38.387][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:38.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.389][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.391][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:38.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:38.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.396][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:38.397][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:38.399][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.400][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.401][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:38.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:38.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.406][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:38.407][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:38.408][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.410][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.411][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:38.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:38.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.416][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:38.417][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:38.418][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.419][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.421][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:38.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:38.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.426][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:38.427][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:38.428][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.429][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.431][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:38.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:38.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.436][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:38.437][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:38.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.439][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.440][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:38.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:38.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.445][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:38.446][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:38.448][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.449][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.450][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:38.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:38.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.454][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.455][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:38.456][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:38.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.459][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.460][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:38.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:38.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.464][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.465][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:38.466][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:38.467][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.468][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.470][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:38.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:38.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.475][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.478][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.479][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.484][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.503][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:38.507][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:38.509][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:38.510][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:38.515][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:38.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:38.517][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:38.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:38.528][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.530][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.532][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.533][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.534][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.539][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:38.540][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:38.542][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.543][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.544][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:38.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:38.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.549][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:38.550][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:38.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.552][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.554][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:38.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:38.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.559][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:38.560][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:38.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.562][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.563][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:38.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:38.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.568][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:38.570][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:38.571][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.572][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.574][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:38.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:38.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.577][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.579][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:38.580][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:38.581][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.582][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.584][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:38.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:38.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.589][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:38.590][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:38.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.593][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.594][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:38.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:38.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.599][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:38.601][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:38.602][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.603][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:38.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:38.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.609][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:38.611][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:38.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.613][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.615][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:38.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:38.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.620][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:38.621][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:38.623][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.624][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.625][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:38.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:38.628][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.629][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.630][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:38.631][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:38.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.633][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.635][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:38.636][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:38.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.640][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.645][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.646][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.647][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.648][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.649][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.654][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:38.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.658][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.659][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.661][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.662][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.663][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.665][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.666][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.667][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.668][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.670][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.671][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.680][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.685][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.690][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.694][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.699][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.704][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.718][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:38.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:38.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:38.730][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-09-25 21:32:38.731][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-09-25 21:32:38.732][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-09-25 21:32:38.747][biodb::testThat]
biodb.INFO [2025-09-25 21:32:38.748][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-09-25 21:32:38.750][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:38.751][biodb::testThat]
biodb.INFO [2025-09-25 21:32:38.780][biodb::testThat]
biodb.INFO [2025-09-25 21:32:38.782][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-09-25 21:32:38.783][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:38.784][biodb::testThat]
biodb.INFO [2025-09-25 21:32:38.794][biodb::testThat]
biodb.INFO [2025-09-25 21:32:38.795][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-09-25 21:32:38.797][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:38.798][biodb::testThat]
sched.DEBUG[2025-09-25 21:32:38.801][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:38.804][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:38.811][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-09-25 21:32:38.813][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-09-25 21:32:38.826][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:38.828][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:38.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.830][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:38.831][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:38.833][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:38.834][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:38.835][ef$get] fields variable is a list.
biodb.INFO [2025-09-25 21:32:38.837][biodb::testThat]
biodb.INFO [2025-09-25 21:32:38.838][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-09-25 21:32:38.839][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:38.840][biodb::testThat]
biodb.ERROR[2025-09-25 21:32:38.858][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-09-25 21:32:38.877][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-09-25 21:32:38.892][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-25 21:32:38.894][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-25 21:32:38.895][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-25 21:32:38.896][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:38.897][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:38.897][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:38.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:38.900][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:38.901][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-25 21:32:38.920][biodb::testContext]
biodb.INFO [2025-09-25 21:32:38.921][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-25 21:32:38.923][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-09-25 21:32:38.924][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-25 21:32:38.925][biodb::testContext]
biodb.INFO [2025-09-25 21:32:38.927][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-25 21:32:38.929][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-09-25 21:32:38.933][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-25 21:32:38.935][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-25 21:32:38.936][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-25 21:32:38.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:38.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:38.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:38.940][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-25 21:32:38.941][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-25 21:32:38.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:38.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:38.944][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:38.945][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-25 21:32:38.947][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-25 21:32:38.948][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:38.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:38.950][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:38.951][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-25 21:32:38.952][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-25 21:32:38.953][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-25 21:32:38.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:38.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:38.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:38.957][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-25 21:32:38.959][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-25 21:32:38.960][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-25 21:32:38.961][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:38.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:38.963][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:38.964][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-25 21:32:38.965][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-25 21:32:38.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:38.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:38.968][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:38.970][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-25 21:32:38.971][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-25 21:32:38.972][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-25 21:32:38.973][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:38.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:38.975][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[2025-09-25 21:32:38.976][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-25 21:32:38.977][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-25 21:32:38.978][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:38.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:38.980][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:38.982][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-25 21:32:38.983][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-25 21:32:38.984][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-25 21:32:38.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:38.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:38.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:38.988][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-25 21:32:38.989][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-25 21:32:38.990][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-25 21:32:38.992][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-25 21:32:38.993][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-25 21:32:38.994][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-25 21:32:38.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:38.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:38.997][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:38.998][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-25 21:32:38.999][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-25 21:32:39.000][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.002][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.004][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-25 21:32:39.005][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-25 21:32:39.006][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.009][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-25 21:32:39.010][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-25 21:32:39.011][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.012][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.013][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.014][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-25 21:32:39.015][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-25 21:32:39.017][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-25 21:32:39.018][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.020][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.021][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-25 21:32:39.022][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-25 21:32:39.026][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-25 21:32:39.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.029][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.030][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-25 21:32:39.031][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-25 21:32:39.032][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-25 21:32:39.033][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.034][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.037][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-25 21:32:39.039][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:39.040][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-25 21:32:39.041][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.043][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-25 21:32:39.044][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.045][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-25 21:32:39.046][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:39.047][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-25 21:32:39.048][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-25 21:32:39.050][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-25 21:32:39.051][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.052][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-25 21:32:39.053][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-25 21:32:39.054][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:39.055][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.057][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-25 21:32:39.057][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-25 21:32:39.057][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-25 21:32:39.057][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-25 21:32:39.057][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-25 21:32:39.058][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-25 21:32:39.059][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:39.060][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:39.061][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-25 21:32:39.062][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:39.063][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:39.064][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-25 21:32:39.066][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:39.067][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-25 21:32:39.068][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-25 21:32:39.069][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:39.070][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:39.071][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-25 21:32:39.073][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:39.075][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-25 21:32:39.076][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.077][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-25 21:32:39.078][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.079][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-25 21:32:39.080][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:39.082][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-25 21:32:39.083][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-25 21:32:39.084][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-25 21:32:39.085][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.094][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-25 21:32:39.095][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-25 21:32:39.097][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:39.098][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.100][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-25 21:32:39.100][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-25 21:32:39.100][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-25 21:32:39.100][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-25 21:32:39.100][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-25 21:32:39.101][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-25 21:32:39.102][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:39.103][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:39.104][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-25 21:32:39.105][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:39.106][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:39.107][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-25 21:32:39.108][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:39.110][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-25 21:32:39.111][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-25 21:32:39.112][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:39.113][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:39.114][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-25 21:32:39.116][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.117][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-25 21:32:39.119][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.120][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-25 21:32:39.121][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.122][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-25 21:32:39.123][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:39.124][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-25 21:32:39.125][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-25 21:32:39.127][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-25 21:32:39.128][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:39.129][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-25 21:32:39.130][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-25 21:32:39.131][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:39.132][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.133][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:39.135][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-25 21:32:39.136][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:39.137][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:39.138][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-25 21:32:39.139][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:39.140][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:39.141][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-25 21:32:39.143][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:39.144][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-25 21:32:39.145][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-25 21:32:39.146][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:39.147][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:39.148][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-25 21:32:39.151][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.152][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-25 21:32:39.153][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.154][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-25 21:32:39.155][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.156][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-25 21:32:39.158][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:39.159][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-25 21:32:39.160][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-25 21:32:39.161][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-25 21:32:39.162][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:39.163][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-25 21:32:39.164][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-25 21:32:39.166][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:39.167][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.168][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:39.169][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-25 21:32:39.170][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:39.171][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:39.172][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-25 21:32:39.173][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:39.174][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:39.176][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-25 21:32:39.177][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:39.178][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-25 21:32:39.179][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-25 21:32:39.180][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:39.181][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:39.183][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-25 21:32:39.184][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.185][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.186][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.187][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.191][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.195][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[2025-09-25 21:32:39.196][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.200][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.208][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.210][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.211][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.214][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.215][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.DEBUG[2025-09-25 21:32:39.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.221][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.222][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.223][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.224][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.225][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.226][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.228][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.231][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.236][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[2025-09-25 21:32:39.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.239][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.241][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.242][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.243][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.245][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.246][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[2025-09-25 21:32:39.247][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.253][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.254][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.255][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.258][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.270][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.271][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.272][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.273][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.277][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-25 21:32:39.278][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-25 21:32:39.280][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-25 21:32:39.282][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-25 21:32:39.283][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-25 21:32:39.285][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-25 21:32:39.286][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-25 21:32:39.288][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-25 21:32:39.290][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-25 21:32:39.291][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-25 21:32:39.293][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-25 21:32:39.295][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-25 21:32:39.296][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-25 21:32:39.298][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-25 21:32:39.300][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-25 21:32:39.301][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-25 21:32:39.303][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-25 21:32:39.305][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-25 21:32:39.306][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-25 21:32:39.308][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-25 21:32:39.310][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-25 21:32:39.311][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-25 21:32:39.313][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-25 21:32:39.315][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-25 21:32:39.316][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-25 21:32:39.318][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-25 21:32:39.320][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-25 21:32:39.321][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-25 21:32:39.323][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-25 21:32:39.324][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-25 21:32:39.326][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-25 21:32:39.327][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-25 21:32:39.329][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-25 21:32:39.331][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-25 21:32:39.332][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-25 21:32:39.334][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-25 21:32:39.335][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-25 21:32:39.337][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-25 21:32:39.338][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-25 21:32:39.340][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-25 21:32:39.342][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-25 21:32:39.343][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-25 21:32:39.345][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-25 21:32:39.346][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-25 21:32:39.348][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-25 21:32:39.350][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-25 21:32:39.351][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-25 21:32:39.353][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-25 21:32:39.355][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-25 21:32:39.356][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-25 21:32:39.358][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-25 21:32:39.359][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-25 21:32:39.361][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-25 21:32:39.362][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-25 21:32:39.364][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-25 21:32:39.366][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-25 21:32:39.367][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-25 21:32:39.369][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-25 21:32:39.370][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-25 21:32:39.372][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-25 21:32:39.374][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-25 21:32:39.375][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-25 21:32:39.377][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-25 21:32:39.379][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-25 21:32:39.380][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-25 21:32:39.382][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-25 21:32:39.384][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-25 21:32:39.385][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-25 21:32:39.387][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-25 21:32:39.389][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-25 21:32:39.390][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-25 21:32:39.392][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-25 21:32:39.394][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-25 21:32:39.396][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-25 21:32:39.397][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-25 21:32:39.399][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-25 21:32:39.401][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-25 21:32:39.403][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-25 21:32:39.404][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-25 21:32:39.406][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-25 21:32:39.408][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-25 21:32:39.409][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-25 21:32:39.411][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-25 21:32:39.413][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-25 21:32:39.415][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-25 21:32:39.416][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-25 21:32:39.417][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.419][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.420][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[2025-09-25 21:32:39.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:39.423][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:39.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.426][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.427][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.428][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.429][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.430][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:39.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:39.639][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.641][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.644][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.645][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:39.648][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:39.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:39.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:39.659][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.663][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.664][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:39.667][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:39.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.670][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.672][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:39.676][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:39.677][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.678][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.681][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:39.685][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:39.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.688][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:39.693][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:39.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.698][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:39.702][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:39.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.705][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.707][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.708][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:39.711][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:39.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.716][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.717][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:39.720][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:39.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.722][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.725][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:39.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:39.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.731][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:39.737][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:39.738][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.740][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.741][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.742][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.743][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:39.746][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:39.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.751][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.752][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:39.754][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:39.756][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.757][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.758][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.759][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.DEBUG[2025-09-25 21:32:39.761][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:39.762][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:39.763][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:39.764][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.766][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.768][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.770][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-25 21:32:39.772][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-25 21:32:39.775][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:39.777][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-25 21:32:39.778][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.779][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-25 21:32:39.781][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.782][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-25 21:32:39.784][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.785][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-25 21:32:39.786][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-25 21:32:39.788][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-25 21:32:39.789][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.791][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-25 21:32:39.792][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-25 21:32:39.793][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-25 21:32:39.793][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-25 21:32:39.793][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-25 21:32:39.793][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-25 21:32:39.793][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-25 21:32:39.793][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-25 21:32:39.793][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-25 21:32:39.793][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-25 21:32:39.793][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-25 21:32:39.793][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-25 21:32:39.793][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-25 21:32:39.795][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:39.796][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-25 21:32:39.796][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-25 21:32:39.796][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-25 21:32:39.798][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-25 21:32:39.799][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:39.800][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:39.802][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-25 21:32:39.803][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:39.804][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:39.806][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-25 21:32:39.807][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-25 21:32:39.807][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-25 21:32:39.809][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-25 21:32:39.810][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-25 21:32:39.811][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:39.813][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-25 21:32:39.813][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-25 21:32:39.814][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-25 21:32:39.817][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-25 21:32:39.819][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-25 21:32:39.821][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-25 21:32:39.823][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-25 21:32:39.825][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-25 21:32:39.830][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-25 21:32:39.835][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-25 21:32:39.836][biodb::testThat]
biodb.INFO [2025-09-25 21:32:39.838][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-09-25 21:32:39.839][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:39.840][biodb::testThat]
sched.DEBUG[2025-09-25 21:32:39.845][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-25 21:32:39.848][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:39.856][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-25 21:32:39.858][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-25 21:32:39.863][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:39.867][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:39.873][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-25 21:32:39.875][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:39.877][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:39.878][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:39.879][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:39.885][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.887][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.888][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-25 21:32:39.892][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:39.896][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:39.902][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-25 21:32:39.903][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:39.907][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:39.908][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:39.913][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:39.919][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.921][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.922][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:39.947][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:39.949][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:39.950][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:39.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.957][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.958][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-25 21:32:39.966][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:39.969][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:39.972][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-25 21:32:39.973][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:39.975][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:39.976][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:39.977][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:39.983][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:39.984][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:39.986][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:39.987][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-25 21:32:39.989][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:39.992][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:39.995][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-25 21:32:39.996][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:39.998][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:39.999][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.008][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.009][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.010][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[2025-09-25 21:32:40.011][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:40.013][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.019][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.021][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.022][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.023][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".
sched.DEBUG[2025-09-25 21:32:40.028][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=51-41-2&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:40.031][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:40.034][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-25 21:32:40.035][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:40.037][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:40.038][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.048][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.049][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-25 21:32:40.058][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=87605-72-9&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:40.061][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:40.063][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-25 21:32:40.064][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:40.066][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:40.067][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.077][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".
sched.DEBUG[2025-09-25 21:32:40.079][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=14215-68-0&searchCategory=REGISTRY NUMBERS&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:40.082][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:40.087][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-09-25 21:32:40.089][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:40.091][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:40.092][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.100][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.102][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-25 21:32:40.112][biodb::testThat]
biodb.INFO [2025-09-25 21:32:40.113][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-09-25 21:32:40.115][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:40.116][biodb::testThat]
sched.DEBUG[2025-09-25 21:32:40.120][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=InChI=1S/C15H24/c1-9(2)11-7-8-15(4)12-6-5-10(3)14(15)13(11)12/h5,9,11-14H,6-8H2,1-4H3/t11?,12?,13?,14?,15-/m0/s1&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:40.124][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:40.130][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-09-25 21:32:40.131][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:40.138][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:40.139][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.143][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.158][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.160][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.161][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.162][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-25 21:32:40.169][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=VLXDPFLIRFYIME-MWHZVNNOSA-N&searchCategory=INCHI/INCHI KEY&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:40.172][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:40.178][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-09-25 21:32:40.179][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:40.181][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:40.182][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.183][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.188][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.189][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.190][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.191][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-25 21:32:40.197][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-25 21:32:40.198][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-25 21:32:40.199][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-25 21:32:40.200][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.201][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.202][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.204][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.206][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-25 21:32:40.209][biodb::testContext]
biodb.INFO [2025-09-25 21:32:40.211][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-25 21:32:40.212][biodb::testContext] Test context - Test web services
biodb.INFO [2025-09-25 21:32:40.213][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-25 21:32:40.214][biodb::testContext]
biodb.INFO [2025-09-25 21:32:40.216][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-25 21:32:40.218][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-09-25 21:32:40.222][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-25 21:32:40.224][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-25 21:32:40.225][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-25 21:32:40.226][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.229][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-25 21:32:40.230][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-25 21:32:40.231][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.232][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.233][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.234][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-25 21:32:40.235][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-25 21:32:40.236][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.237][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.238][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.240][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-25 21:32:40.241][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-25 21:32:40.242][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-25 21:32:40.243][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.244][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.245][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.246][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-25 21:32:40.247][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-25 21:32:40.248][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-25 21:32:40.249][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.252][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-25 21:32:40.254][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-25 21:32:40.255][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.257][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.258][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-25 21:32:40.259][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-25 21:32:40.260][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-25 21:32:40.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.262][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.265][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-25 21:32:40.266][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-25 21:32:40.267][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.268][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.269][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.270][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-25 21:32:40.271][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-25 21:32:40.272][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-25 21:32:40.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.275][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.276][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-25 21:32:40.278][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-25 21:32:40.279][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-25 21:32:40.280][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-25 21:32:40.281][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-25 21:32:40.282][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-25 21:32:40.283][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.284][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.286][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-25 21:32:40.288][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-25 21:32:40.289][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.290][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.292][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-25 21:32:40.293][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-25 21:32:40.294][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.295][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.296][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.298][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-25 21:32:40.299][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-25 21:32:40.300][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.303][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-25 21:32:40.304][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-25 21:32:40.306][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-25 21:32:40.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.309][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.DEBUG[2025-09-25 21:32:40.310][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-25 21:32:40.311][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-25 21:32:40.318][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-25 21:32:40.319][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.320][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.324][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.326][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-25 21:32:40.327][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-25 21:32:40.328][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-25 21:32:40.333][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.339][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[2025-09-25 21:32:40.341][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-25 21:32:40.343][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:40.344][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-25 21:32:40.345][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.346][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-25 21:32:40.348][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.349][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-25 21:32:40.350][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:40.351][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-25 21:32:40.352][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-25 21:32:40.353][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-25 21:32:40.354][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.356][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-25 21:32:40.357][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-25 21:32:40.358][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:40.359][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.360][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-25 21:32:40.360][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-25 21:32:40.360][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-25 21:32:40.360][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-25 21:32:40.360][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-25 21:32:40.361][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-25 21:32:40.362][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:40.363][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:40.364][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-25 21:32:40.366][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:40.367][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:40.368][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-25 21:32:40.369][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:40.370][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-25 21:32:40.371][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-25 21:32:40.372][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:40.373][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:40.374][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-25 21:32:40.377][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:40.378][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-25 21:32:40.379][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.380][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-25 21:32:40.381][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.382][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-25 21:32:40.383][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:40.384][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-25 21:32:40.386][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-25 21:32:40.387][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-25 21:32:40.388][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.389][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-25 21:32:40.390][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-25 21:32:40.391][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:40.392][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.393][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-25 21:32:40.393][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-25 21:32:40.393][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-25 21:32:40.393][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-25 21:32:40.393][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-25 21:32:40.395][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-25 21:32:40.396][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:40.397][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:40.398][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-25 21:32:40.399][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:40.400][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:40.401][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-25 21:32:40.402][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:40.403][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-25 21:32:40.404][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-25 21:32:40.405][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:40.407][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:40.408][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-25 21:32:40.410][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.411][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-25 21:32:40.412][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.413][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-25 21:32:40.415][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.416][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-25 21:32:40.417][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:40.418][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-25 21:32:40.419][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-25 21:32:40.420][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-25 21:32:40.422][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:40.423][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-25 21:32:40.424][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-25 21:32:40.425][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:40.426][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.427][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:40.428][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-25 21:32:40.430][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:40.431][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:40.432][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-25 21:32:40.433][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:40.434][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:40.435][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-25 21:32:40.436][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:40.437][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-25 21:32:40.438][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-25 21:32:40.439][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:40.447][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:40.448][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-25 21:32:40.450][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.451][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-25 21:32:40.452][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.454][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-25 21:32:40.455][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.456][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-25 21:32:40.457][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:40.458][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-25 21:32:40.459][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-25 21:32:40.460][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-25 21:32:40.461][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:40.462][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-25 21:32:40.463][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-25 21:32:40.465][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:40.466][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.467][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:40.468][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-25 21:32:40.469][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:40.470][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:40.471][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-25 21:32:40.472][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:40.473][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:40.474][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-25 21:32:40.475][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:40.476][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-25 21:32:40.477][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-25 21:32:40.478][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:40.479][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:40.481][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-25 21:32:40.482][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.484][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.485][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.486][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.489][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.490][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.492][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.493][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.494][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.495][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.496][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.497][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.498][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.499][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.500][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.501][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.502][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.503][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.504][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.505][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.506][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.507][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.508][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.509][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.510][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.511][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.512][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.513][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.516][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.517][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.518][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.519][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.520][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.521][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.522][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.523][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.524][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.525][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.527][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.528][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[2025-09-25 21:32:40.529][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.530][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.531][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.532][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.533][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[2025-09-25 21:32:40.538][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.539][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.540][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.541][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.542][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[2025-09-25 21:32:40.543][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.544][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.546][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.547][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[2025-09-25 21:32:40.548][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.549][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.550][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.551][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.552][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[2025-09-25 21:32:40.553][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.554][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.556][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.558][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.559][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.561][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.562][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.563][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.564][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.565][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.566][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.567][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.568][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-25 21:32:40.570][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-25 21:32:40.571][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-25 21:32:40.573][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-25 21:32:40.574][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-25 21:32:40.576][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-25 21:32:40.578][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-25 21:32:40.579][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-25 21:32:40.581][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-25 21:32:40.582][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-25 21:32:40.584][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-25 21:32:40.585][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-25 21:32:40.587][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-25 21:32:40.589][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-25 21:32:40.590][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-25 21:32:40.592][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-25 21:32:40.593][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-25 21:32:40.595][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-25 21:32:40.597][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-25 21:32:40.598][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-25 21:32:40.604][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-25 21:32:40.605][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-25 21:32:40.607][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-25 21:32:40.609][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-25 21:32:40.610][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-25 21:32:40.612][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-25 21:32:40.614][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-25 21:32:40.615][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-25 21:32:40.617][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-25 21:32:40.618][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-25 21:32:40.620][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-25 21:32:40.622][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-25 21:32:40.623][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-25 21:32:40.625][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-25 21:32:40.626][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-25 21:32:40.628][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-25 21:32:40.630][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-25 21:32:40.631][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-25 21:32:40.633][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-25 21:32:40.635][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-25 21:32:40.636][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-25 21:32:40.638][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-25 21:32:40.640][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-25 21:32:40.641][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-25 21:32:40.643][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-25 21:32:40.645][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-25 21:32:40.646][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-25 21:32:40.648][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-25 21:32:40.650][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-25 21:32:40.651][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-25 21:32:40.653][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-25 21:32:40.655][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-25 21:32:40.656][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-25 21:32:40.662][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-25 21:32:40.664][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-25 21:32:40.665][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-25 21:32:40.671][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-25 21:32:40.673][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-25 21:32:40.674][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-25 21:32:40.676][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-25 21:32:40.677][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-25 21:32:40.679][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-25 21:32:40.681][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-25 21:32:40.682][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-25 21:32:40.684][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-25 21:32:40.686][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-25 21:32:40.687][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-25 21:32:40.689][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-25 21:32:40.690][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-25 21:32:40.692][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-25 21:32:40.693][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-25 21:32:40.695][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-25 21:32:40.697][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-25 21:32:40.698][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-25 21:32:40.700][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-25 21:32:40.701][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-25 21:32:40.703][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-25 21:32:40.705][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-25 21:32:40.706][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-25 21:32:40.708][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-25 21:32:40.710][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-25 21:32:40.711][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-25 21:32:40.713][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-25 21:32:40.714][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-25 21:32:40.716][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-25 21:32:40.717][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-25 21:32:40.718][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.724][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.725][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.726][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.727][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.733][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.735][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.737][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.751][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.755][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.772][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.774][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.776][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.777][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.778][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.779][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.780][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.781][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.786][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.787][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.788][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.789][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.790][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.791][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.793][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.795][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.796][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.797][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.804][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.805][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.806][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.DEBUG[2025-09-25 21:32:40.807][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.808][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.810][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.812][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.813][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[2025-09-25 21:32:40.818][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.819][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.820][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.821][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.822][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.823][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.824][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.825][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.826][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.827][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.828][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.829][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.830][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.831][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.832][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.833][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.835][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.836][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.837][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.838][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.839][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.840][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.841][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.842][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.843][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.844][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.845][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.846][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.847][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.848][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.849][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.850][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.851][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.852][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.853][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.854][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.856][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.857][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.858][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.859][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.860][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.861][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.862][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.863][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.864][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.865][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.866][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[2025-09-25 21:32:40.867][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:40.868][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.870][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.871][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.872][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.873][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:40.875][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-25 21:32:40.876][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-25 21:32:40.878][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:40.880][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-25 21:32:40.881][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.882][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-25 21:32:40.883][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.884][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-25 21:32:40.885][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.886][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-25 21:32:40.887][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-25 21:32:40.888][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-25 21:32:40.889][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.891][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-25 21:32:40.892][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-25 21:32:40.893][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-25 21:32:40.893][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-25 21:32:40.893][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-25 21:32:40.893][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-25 21:32:40.893][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-25 21:32:40.893][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-25 21:32:40.893][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-25 21:32:40.893][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-25 21:32:40.893][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-25 21:32:40.893][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-25 21:32:40.893][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-25 21:32:40.894][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:40.895][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-25 21:32:40.895][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-25 21:32:40.895][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-25 21:32:40.896][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-25 21:32:40.897][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:40.898][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:40.899][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-25 21:32:40.900][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:40.901][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:40.903][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-25 21:32:40.904][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-25 21:32:40.904][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-25 21:32:40.905][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-25 21:32:40.906][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-25 21:32:40.907][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:40.908][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-25 21:32:40.908][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-25 21:32:40.909][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-25 21:32:40.911][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-25 21:32:40.913][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-25 21:32:40.915][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-25 21:32:40.916][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-25 21:32:40.918][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-25 21:32:40.922][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-25 21:32:40.925][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-25 21:32:40.927][biodb::testThat]
biodb.INFO [2025-09-25 21:32:40.928][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-09-25 21:32:40.929][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:40.930][biodb::testThat]
sched.DEBUG[2025-09-25 21:32:40.933][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-25 21:32:40.935][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:40.946][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-25 21:32:40.948][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-25 21:32:40.958][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:40.961][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:40.971][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-09-25 21:32:40.972][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-09-25 21:32:40.984][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-25 21:32:40.986][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-25 21:32:40.987][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-25 21:32:40.988][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:40.989][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:40.990][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:40.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:40.993][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:40.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-25 21:32:40.998][biodb::testContext]
biodb.INFO [2025-09-25 21:32:40.999][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-25 21:32:41.000][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-09-25 21:32:41.001][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-25 21:32:41.002][biodb::testContext]
biodb.INFO [2025-09-25 21:32:41.005][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-25 21:32:41.007][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-09-25 21:32:41.012][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-25 21:32:41.013][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-25 21:32:41.015][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-25 21:32:41.016][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.018][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.020][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-25 21:32:41.021][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-25 21:32:41.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.024][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.026][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-25 21:32:41.027][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-25 21:32:41.029][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.031][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.032][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-25 21:32:41.037][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-25 21:32:41.039][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-25 21:32:41.040][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.046][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.047][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-25 21:32:41.048][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-25 21:32:41.054][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-25 21:32:41.055][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.060][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.061][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.062][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-25 21:32:41.068][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-25 21:32:41.069][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.070][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.072][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-25 21:32:41.077][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-25 21:32:41.079][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-25 21:32:41.082][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.083][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.089][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.090][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-25 21:32:41.092][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-25 21:32:41.093][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.096][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.098][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-25 21:32:41.099][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-25 21:32:41.101][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-25 21:32:41.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.104][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.105][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[2025-09-25 21:32:41.107][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-25 21:32:41.108][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-25 21:32:41.110][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-25 21:32:41.111][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-25 21:32:41.113][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-25 21:32:41.114][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-25 21:32:41.116][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.117][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.118][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.120][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-25 21:32:41.121][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-25 21:32:41.123][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.125][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[2025-09-25 21:32:41.127][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-25 21:32:41.129][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-25 21:32:41.130][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.134][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-25 21:32:41.136][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-25 21:32:41.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.141][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-25 21:32:41.143][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-25 21:32:41.145][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-25 21:32:41.146][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.147][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.149][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.150][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-25 21:32:41.152][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-25 21:32:41.162][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-25 21:32:41.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.166][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.167][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-25 21:32:41.168][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-25 21:32:41.170][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-25 21:32:41.171][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.175][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-25 21:32:41.177][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:41.179][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-25 21:32:41.180][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.182][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-25 21:32:41.183][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.184][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-25 21:32:41.185][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:41.187][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-25 21:32:41.188][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-25 21:32:41.189][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-25 21:32:41.190][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.192][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-25 21:32:41.193][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-25 21:32:41.194][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:41.195][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.196][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-25 21:32:41.196][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-25 21:32:41.196][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-25 21:32:41.196][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-25 21:32:41.196][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-25 21:32:41.197][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-25 21:32:41.199][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:41.200][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:41.201][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-25 21:32:41.202][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:41.203][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:41.204][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-25 21:32:41.205][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:41.206][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-25 21:32:41.207][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-25 21:32:41.208][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:41.210][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:41.211][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-25 21:32:41.213][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:41.214][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-25 21:32:41.215][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.217][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-25 21:32:41.225][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.226][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-25 21:32:41.227][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:41.228][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-25 21:32:41.229][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-25 21:32:41.231][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-25 21:32:41.232][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.233][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-25 21:32:41.234][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-25 21:32:41.235][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:41.236][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.237][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-25 21:32:41.237][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-25 21:32:41.237][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-25 21:32:41.237][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-25 21:32:41.237][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-25 21:32:41.239][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-25 21:32:41.240][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:41.241][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:41.242][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-25 21:32:41.243][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:41.244][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:41.245][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-25 21:32:41.246][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:41.247][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-25 21:32:41.248][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-25 21:32:41.249][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:41.250][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:41.252][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-25 21:32:41.254][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.255][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-25 21:32:41.256][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.257][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-25 21:32:41.258][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.259][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-25 21:32:41.260][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:41.262][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-25 21:32:41.263][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-25 21:32:41.264][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-25 21:32:41.265][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:41.266][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-25 21:32:41.267][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-25 21:32:41.268][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:41.269][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.271][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:41.272][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-25 21:32:41.274][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:41.275][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:41.276][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-25 21:32:41.277][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:41.278][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:41.279][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-25 21:32:41.281][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:41.282][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-25 21:32:41.283][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-25 21:32:41.285][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:41.286][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:41.288][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-25 21:32:41.291][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.292][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-25 21:32:41.294][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.295][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-25 21:32:41.297][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.298][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-25 21:32:41.300][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:41.301][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-25 21:32:41.303][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-25 21:32:41.304][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-25 21:32:41.306][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:41.307][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-25 21:32:41.309][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-25 21:32:41.310][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:41.312][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.313][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:41.315][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-25 21:32:41.316][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:41.317][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:41.319][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-25 21:32:41.320][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:41.321][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:41.323][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-25 21:32:41.324][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:41.326][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-25 21:32:41.327][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-25 21:32:41.329][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:41.330][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-25 21:32:41.332][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-25 21:32:41.333][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.336][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.337][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.342][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.343][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.346][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.347][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.348][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.354][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.355][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.358][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.359][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.362][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.DEBUG[2025-09-25 21:32:41.363][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.364][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.366][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.367][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.368][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.370][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.372][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.373][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.374][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.375][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.376][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.378][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.379][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.380][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[2025-09-25 21:32:41.381][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.382][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.383][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.385][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[2025-09-25 21:32:41.386][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.390][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.391][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.394][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.396][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[2025-09-25 21:32:41.397][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.398][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.399][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.400][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.401][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.406][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.407][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.408][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.410][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.412][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.413][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.414][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.415][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.418][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.419][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.420][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.423][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.424][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.425][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.427][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.428][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-25 21:32:41.430][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-25 21:32:41.432][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-25 21:32:41.433][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-25 21:32:41.435][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-25 21:32:41.437][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-25 21:32:41.438][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-25 21:32:41.440][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-25 21:32:41.442][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-25 21:32:41.443][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-25 21:32:41.445][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-25 21:32:41.447][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-25 21:32:41.448][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-25 21:32:41.450][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-25 21:32:41.452][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-25 21:32:41.453][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-25 21:32:41.455][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-25 21:32:41.457][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-25 21:32:41.458][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-25 21:32:41.460][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-25 21:32:41.462][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-25 21:32:41.464][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-25 21:32:41.465][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-25 21:32:41.467][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-25 21:32:41.468][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-25 21:32:41.470][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-25 21:32:41.472][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-25 21:32:41.473][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-25 21:32:41.475][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-25 21:32:41.476][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-25 21:32:41.478][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-25 21:32:41.480][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-25 21:32:41.481][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-25 21:32:41.483][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-25 21:32:41.484][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-25 21:32:41.486][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-25 21:32:41.487][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-25 21:32:41.489][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-25 21:32:41.491][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-25 21:32:41.492][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-25 21:32:41.494][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-25 21:32:41.495][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-25 21:32:41.497][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-25 21:32:41.499][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-25 21:32:41.500][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-25 21:32:41.502][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-25 21:32:41.503][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-25 21:32:41.505][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-25 21:32:41.507][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-25 21:32:41.508][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-25 21:32:41.510][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-25 21:32:41.512][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-25 21:32:41.513][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-25 21:32:41.515][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-25 21:32:41.516][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-25 21:32:41.518][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-25 21:32:41.520][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-25 21:32:41.521][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-25 21:32:41.523][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-25 21:32:41.524][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-25 21:32:41.526][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-25 21:32:41.528][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-25 21:32:41.529][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-25 21:32:41.531][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-25 21:32:41.532][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-25 21:32:41.534][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-25 21:32:41.536][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-25 21:32:41.537][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-25 21:32:41.539][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-25 21:32:41.540][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-25 21:32:41.542][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-25 21:32:41.544][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-25 21:32:41.545][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-25 21:32:41.547][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-25 21:32:41.548][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-25 21:32:41.550][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-25 21:32:41.552][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-25 21:32:41.553][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-25 21:32:41.555][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-25 21:32:41.563][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-25 21:32:41.565][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-25 21:32:41.567][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-25 21:32:41.569][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-25 21:32:41.571][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-25 21:32:41.573][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-25 21:32:41.574][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-25 21:32:41.575][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.578][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.579][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:41.583][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:41.584][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.587][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.588][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.589][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.591][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:41.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:41.593][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.597][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.600][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:41.601][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:41.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.605][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.607][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.608][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:41.610][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:41.611][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.612][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.615][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.616][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.617][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:41.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:41.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.621][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.622][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.624][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.625][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.626][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:41.628][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:41.629][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.630][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.631][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:41.636][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:41.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.639][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.641][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[2025-09-25 21:32:41.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:41.645][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:41.647][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.648][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.649][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.650][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.652][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.653][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:41.654][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:41.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.659][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[2025-09-25 21:32:41.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:41.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:41.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.666][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.668][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.DEBUG[2025-09-25 21:32:41.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:41.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:41.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.675][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.676][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.677][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.DEBUG[2025-09-25 21:32:41.679][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.680][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:41.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:41.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.686][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.687][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:41.690][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:41.691][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:41.699][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:41.700][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.701][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.704][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.707][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:41.708][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:41.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.710][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.713][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.714][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-25 21:32:41.716][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:41.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:41.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.719][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.721][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.722][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-25 21:32:41.725][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-25 21:32:41.727][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-25 21:32:41.729][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:41.731][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-25 21:32:41.732][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.734][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-25 21:32:41.735][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.737][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-25 21:32:41.739][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.740][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-25 21:32:41.742][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-25 21:32:41.743][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-25 21:32:41.745][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.746][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-25 21:32:41.748][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-25 21:32:41.749][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-25 21:32:41.749][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-25 21:32:41.749][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-25 21:32:41.749][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-25 21:32:41.749][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-25 21:32:41.749][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-25 21:32:41.749][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-25 21:32:41.749][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-25 21:32:41.749][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-25 21:32:41.749][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-25 21:32:41.749][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-25 21:32:41.751][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-25 21:32:41.752][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-25 21:32:41.752][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-25 21:32:41.752][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-25 21:32:41.754][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-25 21:32:41.755][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:41.757][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:41.758][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-25 21:32:41.760][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-25 21:32:41.761][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-25 21:32:41.762][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-25 21:32:41.764][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-25 21:32:41.764][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-25 21:32:41.765][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-25 21:32:41.766][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-25 21:32:41.768][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-25 21:32:41.769][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-25 21:32:41.769][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-25 21:32:41.771][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-25 21:32:41.774][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-25 21:32:41.776][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-25 21:32:41.778][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-25 21:32:41.781][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-25 21:32:41.783][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-25 21:32:41.788][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-25 21:32:41.793][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-25 21:32:41.795][biodb::testThat]
biodb.INFO [2025-09-25 21:32:41.797][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-09-25 21:32:41.798][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-25 21:32:41.800][biodb::testThat]
sched.DEBUG[2025-09-25 21:32:41.804][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-25 21:32:41.807][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:41.816][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-25 21:32:41.818][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-25 21:32:41.824][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-09-25 21:32:41.828][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-25 21:32:41.831][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-09-25 21:32:41.832][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-25 21:32:41.839][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-09-25 21:32:41.842][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-25 21:32:41.844][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-25 21:32:41.857][FUN] Found encoding UTF-8 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-09-25 21:32:41.861][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-25 21:32:41.863][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-25 21:32:41.864][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-25 21:32:41.867][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-25 21:32:41.868][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:41.870][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:41.877][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:41.878][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:41.879][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:41.881][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-25 21:32:41.887][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:41.888][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:41.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:41.891][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:41.893][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:41.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:41.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:41.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:41.899][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:41.901][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:41.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:41.904][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:41.906][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-25 21:32:41.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-25 21:32:41.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:41.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:41.912][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:41.913][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:41.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:41.916][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:41.918][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-25 21:32:41.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-25 21:32:41.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:41.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:41.923][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-25 21:32:41.925][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-25 21:32:41.926][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:41.927][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:41.930][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-25 21:32:41.931][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-25 21:32:41.932][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:41.934][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:41.936][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:41.937][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:41.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:41.940][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:41.942][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:41.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-25 21:32:41.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:41.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:41.948][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:41.950][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:41.951][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:41.952][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:41.954][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-25 21:32:41.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-25 21:32:41.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:41.959][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:41.960][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:41.962][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:41.963][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:41.965][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:41.967][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:41.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-25 21:32:41.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:41.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:41.973][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:41.975][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:41.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:41.978][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:41.980][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-25 21:32:41.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-25 21:32:41.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:41.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:41.986][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:41.988][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:41.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:41.991][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:42.000][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-25 21:32:42.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-25 21:32:42.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:42.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:42.006][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:42.007][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:42.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:42.010][ef$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:42.012][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-25 21:32:42.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-25 21:32:42.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:42.016][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:42.018][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:42.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:42.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:42.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:42.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:42.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:42.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:42.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:42.029][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:42.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:42.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:42.034][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:42.035][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-25 21:32:42.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-25 21:32:42.038][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:42.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:42.041][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:42.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:42.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:42.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:42.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:42.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:42.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:42.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:42.052][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:42.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:42.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:42.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:42.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:42.060][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:42.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:42.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:42.064][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:42.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:42.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:42.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-25 21:32:42.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-25 21:32:42.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-25 21:32:42.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-25 21:32:42.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-25 21:32:42.075][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-09-25 21:32:42.080][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-25 21:32:42.082][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-25 21:32:42.083][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-25 21:32:42.084][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-25 21:32:42.085][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-25 21:32:42.087][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-25 21:32:42.088][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-25 21:32:42.089][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-25 21:32:42.091][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 357 ]
> 
> proc.time()
   user  system elapsed 
 20.309   0.491  23.563

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.9380.1301.200
ChebiEntry0.2270.0070.275