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This page was generated on 2025-09-23 12:03 -0400 (Tue, 23 Sep 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 Patched (2025-08-23 r88802) -- "Great Square Root" 4816
lconwaymacOS 12.7.1 Montereyx86_644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4605
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-09-10 r88807) -- "Great Square Root" 4549
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4560
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: 2025-09-22 13:45 -0400 (Mon, 22 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    ERROR  
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: 2025-09-22 21:27:37 -0400 (Mon, 22 Sep 2025)
EndedAt: 2025-09-22 21:30:27 -0400 (Mon, 22 Sep 2025)
EllapsedTime: 169.3 seconds
RetCode: 1
Status:   ERROR  
CheckDir: biodbChebi.Rcheck
Warnings: NA

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’
 ERROR
Running the tests in ‘tests/testthat.R’ failed.
Last 13 lines of output:
   3.   └─testthat::expect_true(!is.na(content))
  ── Failure ('test_100_generic.R:16:1'): The entry page URL can be downloaded. ──
  nchar(content) > 0 is not TRUE
  
  `actual`:   <NA>
  `expected`: TRUE
  Backtrace:
      ▆
   1. ├─base::do.call(fct, params)
   2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
   3.   └─testthat::expect_true(nchar(content) > 0)
  
  [ FAIL 2 | WARN 0 | SKIP 0 | PASS 355 ]
  Error: Test failures
  Execution halted
* 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: 1 ERROR
See
  ‘/home/biocbuild/bbs-3.22-bioc/meat/biodbChebi.Rcheck/00check.log’
for details.

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.fail


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 [2025-09-22 21:28:40.013][biodb::testContext]
biodb.INFO [2025-09-22 21:28:40.017][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-22 21:28:40.019][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-09-22 21:28:40.021][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-22 21:28:40.023][biodb::testContext]
biodb.INFO [2025-09-22 21:28:40.035][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-22 21:28:40.039][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-09-22 21:28:40.052][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 21:28:40.054][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-22 21:28:40.056][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-22 21:28:40.057][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.059][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.062][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-22 21:28:40.099][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-22 21:28:40.101][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.104][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[2025-09-22 21:28:40.106][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-22 21:28:40.108][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-22 21:28:40.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.111][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.112][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.114][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-22 21:28:40.116][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-22 21:28:40.118][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-22 21:28:40.119][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.122][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.124][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-22 21:28:40.126][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-22 21:28:40.128][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-22 21:28:40.129][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.134][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-22 21:28:40.136][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-22 21:28:40.137][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.162][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".
biodb.DEBUG[2025-09-22 21:28:40.164][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-22 21:28:40.166][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-22 21:28:40.167][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-22 21:28:40.169][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.171][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.173][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-22 21:28:40.175][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-22 21:28:40.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.181][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.182][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-22 21:28:40.184][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-22 21:28:40.185][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-22 21:28:40.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.190][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.191][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-22 21:28:40.193][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-22 21:28:40.195][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-22 21:28:40.196][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-22 21:28:40.198][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-22 21:28:40.199][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-22 21:28:40.201][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.202][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.204][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[2025-09-22 21:28:40.205][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-22 21:28:40.207][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-22 21:28:40.208][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.211][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.213][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-22 21:28:40.214][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-22 21:28:40.216][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.219][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.220][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-22 21:28:40.222][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-22 21:28:40.223][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.226][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.228][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-22 21:28:40.229][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-22 21:28:40.231][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-22 21:28:40.232][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.234][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.235][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.237][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-22 21:28:40.239][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-22 21:28:40.246][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-22 21:28:40.250][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.252][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.263][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-22 21:28:40.264][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-22 21:28:40.266][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-22 21:28:40.268][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.270][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[2025-09-22 21:28:40.277][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-22 21:28:40.333][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 21:28:40.362][self$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[2025-09-22 21:28:40.364][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:40.366][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 21:28:40.367][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:40.369][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 21:28:40.370][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 21:28:40.372][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 21:28:40.374][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-22 21:28:40.375][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 21:28:40.377][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:40.379][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-22 21:28:40.380][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 21:28:40.382][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 21:28:40.384][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:40.385][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 21:28:40.385][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 21:28:40.385][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 21:28:40.385][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-22 21:28:40.385][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-22 21:28:40.387][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 21:28:40.389][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:28:40.390][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:28:40.392][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 21:28:40.393][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:28:40.395][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:28:40.396][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 21:28:40.398][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 21:28:40.399][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 21:28:40.401][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 21:28:40.402][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 21:28:40.404][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 21:28:40.406][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-22 21:28:40.409][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 21:28:40.411][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-22 21:28:40.412][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:40.414][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 21:28:40.415][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:40.417][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 21:28:40.419][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 21:28:40.420][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 21:28:40.422][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-22 21:28:40.424][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 21:28:40.425][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:40.427][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-22 21:28:40.428][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 21:28:40.430][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 21:28:40.432][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:40.433][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 21:28:40.433][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 21:28:40.433][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 21:28:40.433][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-22 21:28:40.433][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-22 21:28:40.435][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 21:28:40.437][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:28:40.438][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:28:40.440][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 21:28:40.441][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:28:40.443][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:28:40.444][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 21:28:40.446][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 21:28:40.448][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 21:28:40.449][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 21:28:40.451][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 21:28:40.452][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 21:28:40.454][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-22 21:28:40.457][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:40.459][self$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[2025-09-22 21:28:40.461][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:40.462][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 21:28:40.464][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:40.465][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 21:28:40.467][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 21:28:40.469][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 21:28:40.470][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-22 21:28:40.472][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 21:28:40.473][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-22 21:28:40.475][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-22 21:28:40.477][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 21:28:40.478][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 21:28:40.480][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:40.482][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-22 21:28:40.483][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 21:28:40.485][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:28:40.486][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:28:40.488][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 21:28:40.489][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:28:40.491][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:28:40.492][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 21:28:40.494][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 21:28:40.496][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 21:28:40.497][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 21:28:40.499][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 21:28:40.500][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 21:28:40.502][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-22 21:28:40.505][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:40.507][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-22 21:28:40.508][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:40.510][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 21:28:40.512][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:40.513][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 21:28:40.515][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 21:28:40.517][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 21:28:40.518][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-22 21:28:40.520][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 21:28:40.521][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-22 21:28:40.523][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-22 21:28:40.524][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 21:28:40.526][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 21:28:40.535][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:40.537][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-22 21:28:40.538][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 21:28:40.539][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:28:40.541][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:28:40.542][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 21:28:40.544][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:28:40.545][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:28:40.546][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 21:28:40.548][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 21:28:40.549][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 21:28:40.551][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 21:28:40.552][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 21:28:40.553][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 21:28:40.560][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 21:28:40.561][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.563][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.564][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.565][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.567][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.568][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.571][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.572][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.574][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.575][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.576][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.DEBUG[2025-09-22 21:28:40.578][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.579][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.582][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.583][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.584][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.586][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.587][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.588][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.591][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.592][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.594][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.595][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.597][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[2025-09-22 21:28:40.598][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.599][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.602][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.603][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.605][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.606][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.608][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.609][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.610][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.612][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.615][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.616][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.617][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.623][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.624][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[2025-09-22 21:28:40.626][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.630][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.631][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.632][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.634][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.635][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.638][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.641][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.642][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.645][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.646][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.649][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.652][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.653][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.654][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.656][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.657][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.659][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[2025-09-22 21:28:40.660][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.661][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.663][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.664][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.665][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.669][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.672][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[2025-09-22 21:28:40.674][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-22 21:28:40.681][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-22 21:28:40.684][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-22 21:28:40.686][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-22 21:28:40.688][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-22 21:28:40.690][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-22 21:28:40.693][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-22 21:28:40.695][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-22 21:28:40.697][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-22 21:28:40.700][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-22 21:28:40.702][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-22 21:28:40.704][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-22 21:28:40.707][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-22 21:28:40.709][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-22 21:28:40.711][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-22 21:28:40.714][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-22 21:28:40.716][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-22 21:28:40.718][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-22 21:28:40.720][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-22 21:28:40.722][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-22 21:28:40.724][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-22 21:28:40.726][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-22 21:28:40.728][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-22 21:28:40.731][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-22 21:28:40.733][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-22 21:28:40.735][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-22 21:28:40.737][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-22 21:28:40.740][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-22 21:28:40.742][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-22 21:28:40.744][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-22 21:28:40.747][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-22 21:28:40.749][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-22 21:28:40.751][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-22 21:28:40.754][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-22 21:28:40.756][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-22 21:28:40.758][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-22 21:28:40.760][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-22 21:28:40.762][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-22 21:28:40.765][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-22 21:28:40.767][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-22 21:28:40.769][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-22 21:28:40.771][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-22 21:28:40.774][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-22 21:28:40.776][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-22 21:28:40.778][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-22 21:28:40.780][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-22 21:28:40.783][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-22 21:28:40.785][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-22 21:28:40.787][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-22 21:28:40.790][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-22 21:28:40.792][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-22 21:28:40.794][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-22 21:28:40.796][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-22 21:28:40.799][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-22 21:28:40.801][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-22 21:28:40.803][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-22 21:28:40.805][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-22 21:28:40.808][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-22 21:28:40.810][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-22 21:28:40.812][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-22 21:28:40.814][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-22 21:28:40.817][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-22 21:28:40.819][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-22 21:28:40.821][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-22 21:28:40.823][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-22 21:28:40.825][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-22 21:28:40.828][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-22 21:28:40.830][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-22 21:28:40.832][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-22 21:28:40.835][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-22 21:28:40.837][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-22 21:28:40.839][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-22 21:28:40.841][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-22 21:28:40.847][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-22 21:28:40.849][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-22 21:28:40.855][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-22 21:28:40.860][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-22 21:28:40.862][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-22 21:28:40.866][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-22 21:28:40.867][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-22 21:28:40.872][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-22 21:28:40.873][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-22 21:28:40.879][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-22 21:28:40.907][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-22 21:28:40.913][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-22 21:28:40.921][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 21:28:40.922][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.924][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.929][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:28:40.937][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:28:40.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.940][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.941][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.942][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:28:40.944][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:28:40.945][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.946][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.948][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[2025-09-22 21:28:40.949][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:28:40.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:28:40.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.953][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.954][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.955][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.956][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:28:40.958][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:28:40.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.960][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:28:40.965][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:28:40.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.967][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.969][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.DEBUG[2025-09-22 21:28:40.970][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.971][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:28:40.972][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:28:40.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.977][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.978][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:28:40.979][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:28:40.980][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.981][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.983][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:40.984][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.985][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:28:40.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:28:40.987][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.988][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.990][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.DEBUG[2025-09-22 21:28:40.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:28:40.993][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:28:40.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:40.995][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:40.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:40.997][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[2025-09-22 21:28:40.998][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:40.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:28:41.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:28:41.001][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:41.002][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:41.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:41.004][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:41.005][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:41.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:28:41.007][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:28:41.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:41.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:41.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:41.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:41.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:41.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:28:41.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:28:41.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:41.016][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:41.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:41.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:41.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:41.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:28:41.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:28:41.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:41.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:41.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:41.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:41.027][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:41.028][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:28:41.029][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:28:41.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:41.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:41.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:41.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:41.034][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:41.035][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:28:41.036][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:28:41.037][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:41.038][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:41.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:41.041][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:41.042][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:28:41.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:28:41.044][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:28:41.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:41.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:41.047][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:41.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:28:41.050][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-22 21:28:41.062][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-22 21:28:41.065][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 21:28:41.066][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-22 21:28:41.067][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:41.069][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 21:28:41.070][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:41.071][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 21:28:41.072][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:41.073][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-22 21:28:41.075][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-22 21:28:41.076][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 21:28:41.077][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:41.078][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-22 21:28:41.080][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 21:28:41.081][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-22 21:28:41.081][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-22 21:28:41.081][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-22 21:28:41.081][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-22 21:28:41.081][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-22 21:28:41.081][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-22 21:28:41.081][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-22 21:28:41.081][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-22 21:28:41.081][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-22 21:28:41.081][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-22 21:28:41.081][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-22 21:28:41.082][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-22 21:28:41.083][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 21:28:41.083][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 21:28:41.083][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 21:28:41.085][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-22 21:28:41.086][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:28:41.087][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:28:41.088][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 21:28:41.089][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:28:41.090][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:28:41.092][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 21:28:41.093][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-22 21:28:41.093][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-22 21:28:41.094][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 21:28:41.095][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 21:28:41.096][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-22 21:28:41.098][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-22 21:28:41.098][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-22 21:28:41.105][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-22 21:28:41.107][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-22 21:28:41.109][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-22 21:28:41.111][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-22 21:28:41.113][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-22 21:28:41.115][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-22 21:28:41.145][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-22 21:28:41.167][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-22 21:28:41.179][biodb::testThat]
biodb.INFO [2025-09-22 21:28:41.180][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-09-22 21:28:41.181][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:28:41.183][biodb::testThat]
biodb.TRACE[2025-09-22 21:28:41.216][loadFileContents] Loaded 1 files from cache: [1]: "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/testref/entry-chebi-15440-content.xml".
biodb.DEBUG[2025-09-22 21:28:41.219][biodb$getFactory()$createEntryFromCo ...] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:28:41.224][biodb$getFactory()$createEntryFromCo ...] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:28:41.237][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:28:41.238][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:28:41.240][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:28:41.259][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:41.260][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:41.262][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:41.263][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:28:41.278][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.280][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.281][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.283][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.285][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.308][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.311][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:28:41.313][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:28:41.314][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.316][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.362][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:28:41.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:28:41.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.369][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:28:41.370][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:28:41.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.373][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.375][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:28:41.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:28:41.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.382][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:28:41.383][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:28:41.385][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.386][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.388][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:28:41.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:28:41.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.395][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:28:41.397][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:28:41.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.400][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.402][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:28:41.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:28:41.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.408][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:28:41.410][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:28:41.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.413][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.415][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:28:41.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:28:41.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.420][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.421][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:28:41.423][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:41.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.426][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.428][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:28:41.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:41.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.433][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.434][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:41.436][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:41.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.439][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.441][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:41.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:41.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.448][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:28:41.449][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:28:41.451][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.452][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.455][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:28:41.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:28:41.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.462][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:28:41.463][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:28:41.465][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.466][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.468][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:28:41.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:28:41.472][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.475][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:28:41.477][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:28:41.478][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.480][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.482][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:28:41.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:28:41.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.495][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.508][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.521][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.536][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.538][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.540][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.541][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.600][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.613][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:28:41.619][biodb$getFactory()$createEntryFromCo ...] Accession numbers: 15440.
biodb.TRACE[2025-09-22 21:28:41.622][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:28:41.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:28:41.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.628][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:28:41.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:28:41.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.671][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:28:41.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:28:41.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.678][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:28:41.680][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:28:41.681][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.684][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:41.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:41.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.690][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:41.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:41.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.696][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-22 21:28:41.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-22 21:28:41.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.703][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-22 21:28:41.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-22 21:28:41.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.709][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-22 21:28:41.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-22 21:28:41.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.715][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-22 21:28:41.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-22 21:28:41.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.751][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.764][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.776][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.779][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.780][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.784][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.796][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.798][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.802][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.805][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.808][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.809][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.810][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.818][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.836][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.846][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.852][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.864][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.866][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.871][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.873][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.878][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:41.880][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:41.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.912][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.918][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.930][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.944][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.946][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.947][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.953][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.954][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:28:41.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.967][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:28:41.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:28:41.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.972][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:28:41.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:28:41.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.977][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:28:41.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:28:41.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.982][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:28:41.983][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:28:41.984][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.985][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:41.986][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:28:41.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:28:41.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:41.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.000][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:28:42.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:28:42.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.005][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:28:42.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:28:42.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.010][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:28:42.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:28:42.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.015][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:28:42.016][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:28:42.017][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.018][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.020][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:28:42.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:28:42.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.034][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:42.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:42.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.039][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:42.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:42.042][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.043][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.044][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:42.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:42.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.049][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:42.050][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:42.051][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.053][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.054][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:42.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:42.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.057][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.068][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:42.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:42.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.073][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:42.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:42.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.078][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:42.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:42.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.083][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:42.084][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:42.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.094][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.095][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:42.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:42.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.108][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:28:42.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:28:42.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.113][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:28:42.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:28:42.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.117][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:28:42.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:28:42.120][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.122][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:28:42.123][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:28:42.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.125][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.126][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:28:42.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:28:42.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.140][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-22 21:28:42.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:28:42.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.144][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-22 21:28:42.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:28:42.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.148][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.149][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-22 21:28:42.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:28:42.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.154][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-22 21:28:42.155][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:28:42.156][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.157][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.158][self$getBiodb()$getEntryFields()$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-22 21:28:42.159][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:28:42.160][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.161][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.171][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:28:42.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:28:42.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.176][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:28:42.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:28:42.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.180][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:28:42.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:28:42.182][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.185][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:28:42.186][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:28:42.187][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.188][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.189][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:28:42.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:28:42.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.202][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:28:42.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:28:42.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.207][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:28:42.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:28:42.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.212][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:28:42.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:28:42.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.217][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:28:42.218][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:28:42.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.220][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.222][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:28:42.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:28:42.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.236][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:28:42.237][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:28:42.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.241][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:28:42.242][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:28:42.243][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.245][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:28:42.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:28:42.248][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.250][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:28:42.252][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:28:42.253][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.254][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.255][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:28:42.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:28:42.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.269][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:28:42.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:28:42.271][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.272][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.274][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:28:42.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:28:42.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.279][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:28:42.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:28:42.281][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.282][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.283][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:28:42.285][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:28:42.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.287][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.288][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:28:42.289][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:28:42.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.292][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.339][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:42.341][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:42.343][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.344][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.350][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:28:42.351][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:28:42.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.354][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.359][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:28:42.360][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:28:42.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.363][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.368][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:28:42.370][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:28:42.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.373][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.379][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:28:42.381][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:28:42.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.384][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.390][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:28:42.392][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:28:42.394][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.395][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.402][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:42.403][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:42.405][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.406][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.413][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:42.415][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:42.416][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.417][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.424][ef$get] Asked field names are: n.stars.
biodb.TRACE[2025-09-22 21:28:42.425][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:28:42.427][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.428][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.435][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:28:42.436][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:28:42.438][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.439][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.446][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:28:42.447][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:28:42.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.450][ef$get] fields variable is a list.
biodb.INFO [2025-09-22 21:28:42.461][biodb::testThat]
biodb.INFO [2025-09-22 21:28:42.462][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-09-22 21:28:42.464][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:28:42.465][biodb::testThat]
biodb.DEBUG[2025-09-22 21:28:42.488][private$loadEntries] Creating entries from ids [1]: "15440".
biodb.DEBUG[2025-09-22 21:28:42.491][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:28:42.497][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:28:42.507][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15440.xml.
biodb.DEBUG[2025-09-22 21:28:42.509][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:28:42.551][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:28:42.554][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:28:42.556][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:28:42.558][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:28:42.559][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:28:42.566][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:28:42.568][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:28:42.569][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:28:42.570][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:28:42.574][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:42.576][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:42.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.579][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.581][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:42.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:42.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.623][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:28:42.625][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:28:42.627][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.628][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.630][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:28:42.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:28:42.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.636][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:28:42.638][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:28:42.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.641][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.643][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:28:42.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:28:42.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.649][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:28:42.650][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:28:42.652][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.653][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.655][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:28:42.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:28:42.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.661][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:28:42.662][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:28:42.664][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.665][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.667][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:28:42.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:28:42.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.673][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:28:42.675][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:28:42.676][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.678][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.680][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:28:42.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:28:42.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.686][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:28:42.687][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:42.689][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.690][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.692][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:28:42.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:42.695][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.696][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.698][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:42.699][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:42.701][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.702][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.704][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:42.706][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:42.707][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.709][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.710][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:28:42.712][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:28:42.713][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.714][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.717][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:28:42.718][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:28:42.720][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.721][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.723][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:28:42.724][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:28:42.726][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.727][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.729][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:28:42.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:28:42.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.735][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:28:42.737][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:28:42.738][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.740][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.742][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:28:42.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:28:42.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:28:42.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:28:42.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:28:42.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:28:42.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.761][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:42.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:42.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:28:42.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:28:42.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.774][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:42.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:42.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:42.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:42.783][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.784][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.786][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:42.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:42.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.792][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:42.794][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:42.795][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.797][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.798][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:42.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:42.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.805][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:28:42.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:28:42.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:28:42.811][self$createEntryFromContent] Accession numbers: 15440.
biodb.TRACE[2025-09-22 21:28:42.813][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-09-22 21:28:42.814][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-09-22 21:28:42.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.819][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-09-22 21:28:42.821][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-09-22 21:28:42.822][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.825][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-09-22 21:28:42.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-09-22 21:28:42.829][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.830][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-22 21:28:42.843][biodb::testThat]
biodb.INFO [2025-09-22 21:28:42.844][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-09-22 21:28:42.846][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:28:42.847][biodb::testThat]
biodb.TRACE[2025-09-22 21:28:42.852][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:28:42.854][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:28:42.855][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.856][ef$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:28:42.858][function(conn, opt)] Testing searchForEntries() with entry "15440" and field "name".
biodb.TRACE[2025-09-22 21:28:42.908][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:28:42.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:28:42.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.914][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:28:42.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:28:42.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.919][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:42.920][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:28:42.922][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:28:42.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:42.925][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:28:42.930][function(conn, opt)] With value "squalene".
sched.DEBUG[2025-09-22 21:28:42.938][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-22 21:28:42.980][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:28:42.996][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-22 21:28:42.997][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-22 21:28:43.040][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 [2025-09-22 21:28:43.087][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:28:43.095][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-22 21:28:43.100][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:28:43.104][function(conn, opt)] With found IDs [1]: "15440".
biodb.TRACE[2025-09-22 21:28:43.135][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:43.140][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:28:43.141][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.143][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.147][ef$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:43.148][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:43.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.153][ef$get] fields variable is a list.
biodb.INFO [2025-09-22 21:28:43.162][biodb::testThat]
biodb.INFO [2025-09-22 21:28:43.163][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-09-22 21:28:43.164][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:28:43.165][biodb::testThat]
biodb.TRACE[2025-09-22 21:28:43.231][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:28:43.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:28:43.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.255][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:28:43.260][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:28:43.261][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.262][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.268][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:28:43.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:28:43.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 21:28:43.342][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 [2025-09-22 21:28:43.345][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:28:43.349][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-22 21:28:43.350][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-09-22 21:28:43.368][biodb::testThat]
biodb.INFO [2025-09-22 21:28:43.369][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-09-22 21:28:43.370][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:28:43.371][biodb::testThat]
biodb.TRACE[2025-09-22 21:28:43.395][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:28:43.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:28:43.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.401][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:28:43.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:28:43.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.406][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:28:43.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:28:43.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.411][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:28:43.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:28:43.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:43.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:43.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.420][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:43.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:43.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.425][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-22 21:28:43.427][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-22 21:28:43.428][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.430][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-22 21:28:43.432][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-22 21:28:43.433][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.435][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-22 21:28:43.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-22 21:28:43.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.440][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-22 21:28:43.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-22 21:28:43.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.496][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:28:43.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:28:43.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.501][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:28:43.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:28:43.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.509][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:28:43.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:28:43.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.513][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.519][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:28:43.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:28:43.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.526][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:43.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:43.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:43.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:28:43.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.539][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-22 21:28:43.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-22 21:28:43.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.549][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-09-22 21:28:43.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-09-22 21:28:43.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.554][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-09-22 21:28:43.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-09-22 21:28:43.560][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:28:43.564][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-09-22 21:28:43.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-09-22 21:28:43.570][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:28:43.571][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-22 21:28:43.585][biodb::testThat]
biodb.INFO [2025-09-22 21:28:43.586][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-09-22 21:28:43.589][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:28:43.590][biodb::testThat]
biodb.INFO [2025-09-22 21:28:43.605][biodb::testThat]
biodb.INFO [2025-09-22 21:28:43.610][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-09-22 21:28:43.611][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:28:43.612][biodb::testThat]
biodb.INFO [2025-09-22 21:28:43.623][biodb::testThat]
biodb.INFO [2025-09-22 21:28:43.627][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-09-22 21:28:43.628][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:28:43.629][biodb::testThat]
biodb.DEBUG[2025-09-22 21:28:43.635][function(conn, opt)] Trying to download "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440".
sched.TRACE[2025-09-22 21:28:55.672][try_get_rcurl_content] Using RCurl package for sending request (https://www.ebi.ac.uk/chebi/searchId.do?chebiId=15440).
biodb.INFO [2025-09-22 21:29:55.976][biodb::testThat]
biodb.INFO [2025-09-22 21:29:55.978][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-09-22 21:29:55.979][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:29:55.981][biodb::testThat]
biodb.TRACE[2025-09-22 21:29:55.990][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:55.992][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:55.993][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:55.994][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:55.996][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:55.997][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:55.999][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.000][ef$get] fields variable is a list.
biodb.INFO [2025-09-22 21:29:56.003][biodb::testThat]
biodb.INFO [2025-09-22 21:29:56.005][biodb::testThat] Running test function  test.searchCompound  (" We can search for a compound ").
biodb.INFO [2025-09-22 21:29:56.006][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:29:56.008][biodb::testThat]
biodb.TRACE[2025-09-22 21:29:56.026][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:56.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:56.030][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.033][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:56.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:56.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.040][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:56.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:56.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 21:29:56.169][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 [2025-09-22 21:29:56.174][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:29:56.179][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-22 21:29:56.181][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-22 21:29:56.419][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 [2025-09-22 21:29:56.425][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:29:56.430][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-22 21:29:56.432][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-09-22 21:29:56.455][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-22 21:29:56.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-22 21:29:56.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.470][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.473][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.474][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.477][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.480][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.485][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.486][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.492][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 21:29:56.509][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 [2025-09-22 21:29:56.513][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:29:56.519][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-22 21:29:56.521][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:29:56.525][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:56.526][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:56.528][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:56.535][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:56.536][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:56.538][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:56.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:29:56.541][private$loadEntries] Creating entries from ids [1]: "192288".
biodb.DEBUG[2025-09-22 21:29:56.627][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:29:56.630][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:29:56.640][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/192288.xml.
biodb.DEBUG[2025-09-22 21:29:56.642][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:29:56.644][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:29:56.646][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:29:56.648][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:56.650][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:56.651][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:56.658][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:56.660][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:56.661][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:56.662][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[2025-09-22 21:29:56.666][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:56.667][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:56.669][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.670][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:56.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:56.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.678][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:29:56.680][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:29:56.681][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.682][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.684][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:29:56.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:29:56.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.689][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.691][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:29:56.692][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:29:56.694][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.695][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.698][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:29:56.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:29:56.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.704][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:29:56.705][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:29:56.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.708][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.710][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:29:56.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:29:56.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.716][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:29:56.718][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:29:56.719][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.721][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.723][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:29:56.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:29:56.726][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.727][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.729][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:56.731][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:56.732][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.734][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.735][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:29:56.737][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.739][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.740][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.742][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:29:56.744][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.746][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.748][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:56.750][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:56.751][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.753][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:56.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:56.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.768][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:56.770][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:56.771][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.772][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.775][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:56.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:56.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.780][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:56.782][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:56.783][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.785][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.786][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:56.788][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:56.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.791][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.792][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:29:56.794][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:29:56.795][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.797][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.799][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:29:56.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:29:56.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.805][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:56.806][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:56.808][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.811][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:56.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:56.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.817][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:56.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:56.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.823][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:56.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:56.826][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.829][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:56.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:56.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.835][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:56.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:56.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.841][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:56.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:56.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.847][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:56.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:56.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.853][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:56.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:56.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.859][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:56.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:56.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.863][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:56.864][self$createEntryFromContent] Accession numbers: 192288.
biodb.TRACE[2025-09-22 21:29:56.882][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.884][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.885][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.887][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.889][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.890][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.893][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.895][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 21:29:56.902][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 21:29:56.906][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:29:56.910][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-22 21:29:56.911][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:29:56.944][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:56.946][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:56.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:56.954][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:56.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:56.957][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:56.959][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:29:56.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.967][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:56.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:56.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:56.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:56.979][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:56.980][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:56.981][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:56.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:56.990][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:56.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:56.993][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:29:56.995][private$loadEntries] Creating entries from ids [1]: "209892".
biodb.DEBUG[2025-09-22 21:29:56.997][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:29:56.999][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:29:57.004][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/209892.xml.
biodb.DEBUG[2025-09-22 21:29:57.006][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:29:57.008][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:29:57.010][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:29:57.012][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:57.014][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:57.015][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:57.022][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:57.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:57.025][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:57.026][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:29:57.030][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.031][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.033][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.034][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.036][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.037][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.042][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:29:57.043][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:29:57.045][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.046][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.048][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:29:57.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:29:57.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.054][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:29:57.056][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:29:57.057][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.058][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.061][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:29:57.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:29:57.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.067][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:29:57.068][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:29:57.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.071][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.073][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:29:57.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:29:57.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.079][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:29:57.080][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:29:57.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.083][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.085][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:29:57.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:29:57.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.090][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:57.092][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:57.093][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.094][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.096][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:29:57.098][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.099][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.101][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.102][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:29:57.104][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.108][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:57.110][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:57.111][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.113][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.115][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:57.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:57.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.121][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:57.122][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:57.124][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.125][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.134][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:57.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:57.137][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.140][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:57.142][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:57.143][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.144][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.146][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:57.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:57.149][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.152][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:29:57.154][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:29:57.155][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.157][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.158][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:29:57.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:29:57.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.164][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.176][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.182][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.186][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.192][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.198][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.201][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.206][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.212][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.218][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.220][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:57.224][self$createEntryFromContent] Accession numbers: 209892.
biodb.TRACE[2025-09-22 21:29:57.226][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.232][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.238][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 21:29:57.270][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 [2025-09-22 21:29:57.274][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:29:57.279][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-22 21:29:57.281][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:29:57.285][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:57.287][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:57.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:57.295][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:57.296][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:57.298][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:57.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:29:57.301][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.306][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.311][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.312][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:57.327][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:57.328][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:57.330][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:57.338][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:57.339][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:57.340][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:57.342][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[2025-09-22 21:29:57.343][private$loadEntries] Creating entries from ids [1]: "26747".
biodb.DEBUG[2025-09-22 21:29:57.345][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:29:57.347][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:29:57.351][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/26747.xml.
biodb.DEBUG[2025-09-22 21:29:57.353][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:29:57.355][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:29:57.356][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:29:57.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:57.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:57.361][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:57.368][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:57.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:57.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:57.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:29:57.376][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.377][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.379][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.380][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.388][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:29:57.390][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:29:57.391][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.393][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.394][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:29:57.396][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:29:57.398][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.399][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.401][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:29:57.403][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:29:57.404][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.406][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.408][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:29:57.409][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:29:57.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.412][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.414][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:57.416][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:57.417][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.418][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.420][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:29:57.422][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.423][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.425][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.427][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:57.428][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:57.430][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.431][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.433][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:57.435][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:57.436][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.438][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.440][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:57.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:57.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.446][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:57.448][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:57.449][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.450][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.452][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:57.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:57.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.459][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:29:57.460][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:29:57.462][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.463][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.465][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.469][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.471][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.473][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.483][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.485][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.486][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.489][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.501][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.514][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.520][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.525][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.526][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.528][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.529][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:57.532][self$createEntryFromContent] Accession numbers: 26747.
biodb.TRACE[2025-09-22 21:29:57.534][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.546][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.548][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.551][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.553][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.554][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.559][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:57.566][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:57.567][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:57.569][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:57.576][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:57.577][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:57.579][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:57.580][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:29:57.582][private$loadEntries] Creating entries from ids [1]: "59285".
biodb.DEBUG[2025-09-22 21:29:57.583][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:29:57.586][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:29:57.598][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/59285.xml.
biodb.DEBUG[2025-09-22 21:29:57.599][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:29:57.600][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:29:57.602][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:29:57.604][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:57.605][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:57.606][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:57.612][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:57.613][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:57.615][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:57.616][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:29:57.618][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.619][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.621][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.622][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.629][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:29:57.630][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:29:57.631][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.632][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.634][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:29:57.635][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:29:57.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.637][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.639][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:29:57.640][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:29:57.641][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.642][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.644][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:29:57.645][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:29:57.646][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.647][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.649][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:57.650][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:57.651][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.652][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.653][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:29:57.655][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.657][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.658][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:57.660][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:57.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.662][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.663][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:57.664][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:57.665][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.666][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.668][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:57.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:57.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.673][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:57.674][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:57.675][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.676][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.684][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:57.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:57.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.689][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:29:57.690][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:29:57.691][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.692][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.694][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.695][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.698][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.703][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.704][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.705][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.706][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.707][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.712][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.716][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.719][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.720][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.721][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.726][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.728][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.730][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.733][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.734][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.735][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.736][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:57.740][self$createEntryFromContent] Accession numbers: 59285.
biodb.TRACE[2025-09-22 21:29:57.741][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.742][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.745][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.747][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.748][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.750][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.755][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.759][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.763][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:57.764][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:57.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:57.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:57.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:57.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:57.774][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:57.775][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:29:57.776][private$loadEntries] Creating entries from ids [1]: "75174".
biodb.DEBUG[2025-09-22 21:29:57.777][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:29:57.779][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:29:57.787][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/75174.xml.
biodb.DEBUG[2025-09-22 21:29:57.788][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:29:57.790][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:29:57.791][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:29:57.793][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:57.794][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:57.795][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:57.801][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:57.802][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:57.803][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:57.804][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:29:57.807][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.808][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.809][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.810][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.811][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.813][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.814][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.816][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:29:57.817][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:29:57.818][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.819][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.821][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:29:57.822][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:29:57.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.824][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.832][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:29:57.833][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:29:57.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.836][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.837][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:29:57.838][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:29:57.839][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.840][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.842][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:57.843][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:57.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.853][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.856][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:29:57.857][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:57.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.860][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.863][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:57.864][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:57.866][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.867][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.869][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:57.870][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:57.872][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.873][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.876][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:57.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:57.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.882][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:57.888][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:57.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.891][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.896][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:57.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:57.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.910][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:29:57.912][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:29:57.914][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.915][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.921][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.923][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.935][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.949][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.960][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:57.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.966][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.969][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.972][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.974][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.975][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.978][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.984][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.986][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.987][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.990][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:57.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:57.996][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:57.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:57.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:58.002][self$createEntryFromContent] Accession numbers: 75174.
biodb.TRACE[2025-09-22 21:29:58.004][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.010][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.016][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.026][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.039][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.041][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:58.051][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:58.057][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:58.058][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:58.073][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:58.079][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:58.081][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:58.082][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:29:58.084][private$loadEntries] Creating entries from ids [1]: "15441".
biodb.DEBUG[2025-09-22 21:29:58.085][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:29:58.094][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:29:58.110][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15441.xml.
biodb.DEBUG[2025-09-22 21:29:58.112][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:29:58.114][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:29:58.120][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:29:58.126][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:58.128][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:58.133][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:58.146][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:58.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:58.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:58.157][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:29:58.163][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.169][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.171][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.175][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.183][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:29:58.185][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:29:58.186][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.188][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.190][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:29:58.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:29:58.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.194][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.196][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:29:58.197][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:29:58.199][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.200][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.202][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:29:58.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:29:58.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.208][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:29:58.210][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:29:58.211][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.213][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.215][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:29:58.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:29:58.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.221][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:29:58.222][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:29:58.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.225][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.227][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:29:58.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:29:58.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.233][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:58.234][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:58.236][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.237][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.239][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:58.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:58.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.245][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:29:58.246][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.248][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.249][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.251][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:29:58.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.257][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:58.259][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:58.260][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.262][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.263][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:58.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:58.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.270][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:58.271][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:58.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.274][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.277][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:58.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:58.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.283][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:58.284][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:58.286][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.287][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.289][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:58.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:58.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.295][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:29:58.297][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:29:58.298][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.300][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.302][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:29:58.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:29:58.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.308][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:58.309][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:58.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.314][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:58.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:58.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.332][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:58.333][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:58.335][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.336][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.338][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.343][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.349][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.355][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.359][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.360][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.365][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.366][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.370][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:58.372][self$createEntryFromContent] Accession numbers: 15441.
biodb.TRACE[2025-09-22 21:29:58.374][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.380][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.386][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:58.391][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:58.393][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:58.394][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:58.401][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:58.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:58.404][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:58.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:29:58.407][private$loadEntries] Creating entries from ids [1]: "15442".
biodb.DEBUG[2025-09-22 21:29:58.408][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:29:58.410][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:29:58.419][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/15442.xml.
biodb.DEBUG[2025-09-22 21:29:58.420][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:29:58.422][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:29:58.424][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:29:58.426][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:58.428][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:58.429][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:58.436][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:58.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:58.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:58.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:29:58.444][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.445][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.447][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.448][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.452][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.453][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.456][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:29:58.458][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:29:58.459][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.461][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.463][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:29:58.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:29:58.466][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.469][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:29:58.470][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:29:58.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.473][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.475][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:29:58.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:29:58.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.482][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:29:58.483][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:29:58.485][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.486][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.488][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:29:58.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:29:58.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.494][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:29:58.495][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:29:58.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.498][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.500][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:29:58.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:29:58.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.513][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:58.514][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:58.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.517][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.519][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:58.520][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:58.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.525][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:29:58.526][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.534][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.538][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:29:58.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.546][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:58.548][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:58.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.551][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.553][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:58.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:58.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.560][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:58.562][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:58.564][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.565][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.568][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:58.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:58.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.573][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.575][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:58.577][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:58.578][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.580][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.582][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:58.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:58.585][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.589][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:29:58.590][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:29:58.592][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.593][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.596][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:29:58.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:29:58.599][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.601][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.603][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:58.604][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:58.606][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:58.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:58.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.616][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.618][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.619][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.622][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:58.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:58.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.629][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.650][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.658][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.666][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:58.676][self$createEntryFromContent] Accession numbers: 15442.
biodb.TRACE[2025-09-22 21:29:58.682][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.687][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.696][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.710][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.715][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.716][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:58.724][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:58.725][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:58.731][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:58.744][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:58.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:58.747][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:58.748][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:29:58.750][private$loadEntries] Creating entries from ids [1]: "57310".
biodb.DEBUG[2025-09-22 21:29:58.769][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:29:58.772][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:29:58.781][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/57310.xml.
biodb.DEBUG[2025-09-22 21:29:58.783][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:29:58.787][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:29:58.788][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:29:58.790][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:58.791][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:58.793][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:58.798][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:58.799][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:58.800][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:58.801][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:29:58.804][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.805][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.806][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.807][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.809][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.814][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:29:58.815][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:29:58.816][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.817][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.819][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:29:58.820][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:29:58.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.823][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:29:58.824][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:29:58.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.826][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.828][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:29:58.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:29:58.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.833][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:29:58.834][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:29:58.835][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.836][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.837][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:29:58.838][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:29:58.840][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.841][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.842][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:29:58.843][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:29:58.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.845][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.847][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:29:58.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:29:58.849][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.850][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.851][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:58.853][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:58.854][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.855][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.856][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:29:58.857][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.859][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.860][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.861][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:29:58.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.864][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.866][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:58.867][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:58.868][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.869][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.871][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:58.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:58.873][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.874][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.875][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:58.877][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:58.878][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.879][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.881][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:58.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:58.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.885][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:58.887][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:58.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.889][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.890][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:58.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:58.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.895][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:29:58.896][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:29:58.897][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.898][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.900][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:29:58.901][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:29:58.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:58.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:58.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:58.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:58.911][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.914][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.915][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.924][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:58.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:58.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.927][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.932][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.933][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.938][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.947][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.948][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.949][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.951][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:58.953][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:58.954][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.955][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:58.956][self$createEntryFromContent] Accession numbers: 57310.
biodb.TRACE[2025-09-22 21:29:58.957][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:58.977][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:58.978][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:58.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:59.023][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:59.024][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:59.025][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:59.038][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:59.039][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:59.040][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:59.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:29:59.055][private$loadEntries] Creating entries from ids [1]: "66216".
biodb.DEBUG[2025-09-22 21:29:59.056][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:29:59.069][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:29:59.084][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/66216.xml.
biodb.DEBUG[2025-09-22 21:29:59.085][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:29:59.087][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:29:59.098][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:29:59.100][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:59.109][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:59.110][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:59.123][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:59.124][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:59.125][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:59.126][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:29:59.137][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.146][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.147][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.148][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.165][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:29:59.167][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:29:59.168][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.169][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.174][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:29:59.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:29:59.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.183][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.184][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:29:59.185][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:29:59.189][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.190][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.191][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:29:59.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:29:59.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.200][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:29:59.201][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:29:59.202][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.209][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.211][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:29:59.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:29:59.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.219][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:29:59.220][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:29:59.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.227][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.228][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:29:59.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:29:59.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.241][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:59.309][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:59.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.312][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.313][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:29:59.314][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.315][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.316][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.317][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:29:59.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.321][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:59.322][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:59.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.324][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:59.327][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:59.328][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.330][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:59.331][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:59.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.333][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.335][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:59.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:59.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.340][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:59.341][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:59.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.343][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.345][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:59.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:59.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.349][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:29:59.351][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:29:59.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.353][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.354][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:29:59.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:29:59.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.359][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:59.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:59.361][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.362][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:59.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:59.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.368][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.373][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:59.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:59.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.376][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.377][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.386][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.391][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.398][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:59.405][self$createEntryFromContent] Accession numbers: 66216.
biodb.TRACE[2025-09-22 21:29:59.406][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.411][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:59.420][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:59.421][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:59.422][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:59.428][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:59.429][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:59.430][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:59.431][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:29:59.432][private$loadEntries] Creating entries from ids [1]: "70860".
biodb.DEBUG[2025-09-22 21:29:59.434][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:29:59.435][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:29:59.443][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70860.xml.
biodb.DEBUG[2025-09-22 21:29:59.448][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:29:59.449][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:29:59.451][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:29:59.453][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:59.460][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:59.461][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:59.467][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:59.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:59.469][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:59.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:29:59.473][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.474][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.476][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.477][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.481][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.482][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:29:59.483][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:29:59.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.485][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.487][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:29:59.488][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:29:59.489][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.490][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.491][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:29:59.493][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:29:59.494][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.495][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.496][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:29:59.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:29:59.499][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.500][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.501][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:29:59.502][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:29:59.503][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.504][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.506][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:29:59.507][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:29:59.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.510][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:29:59.512][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:29:59.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.514][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.515][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:29:59.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:29:59.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.520][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:59.521][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:59.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.523][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.524][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:29:59.526][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.528][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.529][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:29:59.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.534][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:59.535][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:59.536][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.537][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.539][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:59.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:59.541][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.542][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.543][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:59.548][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:59.549][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.551][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.552][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:59.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:59.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.566][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:59.568][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:59.573][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.574][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.579][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:59.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:59.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.586][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:29:59.587][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:29:59.588][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.589][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.590][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:29:59.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:29:59.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:59.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:59.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:59.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:59.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.615][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.620][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.621][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.625][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.626][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:59.627][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:59.632][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.633][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.639][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.646][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.657][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.658][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.663][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.669][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.670][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.671][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.675][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:59.679][self$createEntryFromContent] Accession numbers: 70860.
biodb.TRACE[2025-09-22 21:29:59.680][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.685][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.689][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:59.694][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:59.695][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:59.696][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:59.702][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:59.703][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:59.704][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:59.705][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:29:59.706][private$loadEntries] Creating entries from ids [1]: "70861".
biodb.DEBUG[2025-09-22 21:29:59.707][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:29:59.709][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:29:59.720][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/70861.xml.
biodb.DEBUG[2025-09-22 21:29:59.722][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:29:59.728][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:29:59.734][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:29:59.741][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:59.742][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:59.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:59.752][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:59.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:59.755][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:59.756][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.TRACE[2025-09-22 21:29:59.760][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.762][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.763][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.764][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.766][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.769][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.772][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:29:59.774][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:29:59.775][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.777][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.779][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:29:59.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:29:59.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.785][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:29:59.786][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:29:59.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.789][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.791][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:29:59.793][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:29:59.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.796][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.797][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:29:59.799][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:29:59.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.802][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.803][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:29:59.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:29:59.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.810][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:29:59.811][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:29:59.813][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.814][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.816][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:29:59.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:29:59.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.821][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.822][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:59.824][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:29:59.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.827][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.829][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:29:59.830][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.832][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.833][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.835][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:29:59.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.841][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:59.843][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:59.851][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.852][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.855][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:59.856][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:29:59.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.861][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:59.863][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:59.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.865][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.867][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:29:59.869][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:29:59.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.874][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:59.875][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:59.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.878][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.880][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:29:59.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:29:59.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.886][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:29:59.888][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:29:59.889][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.891][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.893][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:29:59.894][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:29:59.896][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.899][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:59.900][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:59.902][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.903][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.905][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:59.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:59.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.911][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.917][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:29:59.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:29:59.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.922][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.923][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.925][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.926][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.929][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.935][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.937][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.938][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.942][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.948][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.954][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:29:59.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:29:59.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:59.960][self$createEntryFromContent] Accession numbers: 70861.
biodb.TRACE[2025-09-22 21:29:59.961][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.963][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.964][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.968][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:29:59.974][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:29:59.977][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:29:59.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:29:59.980][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:29:59.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:29:59.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:29:59.990][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:29:59.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:29:59.993][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:29:59.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:29:59.996][private$loadEntries] Creating entries from ids [1]: "78662".
biodb.DEBUG[2025-09-22 21:29:59.997][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:30:00.000][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:30:00.009][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/78662.xml.
biodb.DEBUG[2025-09-22 21:30:00.011][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:30:00.017][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:30:00.019][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:30:00.025][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:00.031][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:00.033][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:00.047][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:00.048][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:00.049][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:00.050][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:00.057][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.059][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.061][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.073][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.074][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:00.075][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:00.076][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.077][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.079][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:00.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:00.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.083][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:00.085][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:00.086][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.087][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.088][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:00.089][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:00.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.093][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:00.094][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:00.095][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.096][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.098][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:00.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:00.100][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.101][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.102][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:00.104][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:00.105][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.106][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.107][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:00.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:00.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.112][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:00.113][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:00.114][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.115][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.117][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:00.118][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.119][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.120][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.122][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:00.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.124][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.126][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:00.128][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:00.129][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.130][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.131][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:00.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:00.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.136][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:00.137][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:00.138][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.139][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.141][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:00.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:00.143][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.144][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.146][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:00.147][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:00.148][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.149][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.150][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:00.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:00.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.155][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:00.156][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:00.157][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.158][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.160][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:00.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:00.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.169][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.192][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.197][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.213][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:00.218][self$createEntryFromContent] Accession numbers: 78662.
biodb.TRACE[2025-09-22 21:30:00.219][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.221][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.222][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.223][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.224][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.229][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.231][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.232][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:00.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:00.234][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:00.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:00.241][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:00.242][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:00.243][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:00.244][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:00.245][private$loadEntries] Creating entries from ids [1]: "85084".
biodb.DEBUG[2025-09-22 21:30:00.246][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:30:00.248][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:30:00.252][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85084.xml.
biodb.DEBUG[2025-09-22 21:30:00.253][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:30:00.255][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:30:00.256][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:30:00.258][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:00.259][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:00.260][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:00.265][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:00.266][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:00.267][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:00.269][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.TRACE[2025-09-22 21:30:00.271][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.272][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.273][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.275][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.276][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.281][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:00.282][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:00.283][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.284][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.286][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:00.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:00.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.290][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:00.291][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:00.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.294][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.295][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:00.296][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:00.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.300][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:00.301][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:00.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.303][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.305][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:00.306][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:00.307][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.308][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.309][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:00.311][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:00.312][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.313][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.314][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:00.316][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.317][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.318][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.319][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:00.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.324][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:00.325][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:00.326][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.327][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:00.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:00.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.333][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:00.335][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:00.336][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.337][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.339][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:00.340][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:00.341][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.343][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:00.344][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:00.346][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.347][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.348][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:00.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:00.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.359][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:00.361][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:00.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.363][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.364][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.369][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.373][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.378][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.380][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.382][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.386][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.389][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.390][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.394][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.396][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.398][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.401][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:00.410][self$createEntryFromContent] Accession numbers: 85084.
biodb.TRACE[2025-09-22 21:30:00.411][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.416][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.420][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.423][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.424][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:00.425][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:00.426][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:00.427][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:00.432][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:00.433][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:00.434][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:00.435][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:00.437][private$loadEntries] Creating entries from ids [1]: "85086".
biodb.DEBUG[2025-09-22 21:30:00.438][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:30:00.439][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:30:00.444][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/85086.xml.
biodb.DEBUG[2025-09-22 21:30:00.446][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:30:00.448][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:30:00.449][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:30:00.452][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:00.453][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:00.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:00.461][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:00.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:00.464][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:00.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:00.469][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.470][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.472][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.473][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.475][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.476][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.481][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:00.482][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:00.484][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.485][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.487][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:00.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:00.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.493][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:00.494][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:00.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.497][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.499][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:00.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:00.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.505][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:00.507][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:00.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.516][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.518][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:00.520][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:00.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.523][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.525][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:00.526][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:00.527][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.529][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.530][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:00.532][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.533][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.534][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.536][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:00.537][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.539][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.540][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.542][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:00.543][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:00.544][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.546][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.547][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:00.549][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:00.550][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.552][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.553][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:00.555][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:00.556][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.557][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.559][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:00.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:00.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.565][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:00.567][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:00.568][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.570][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.572][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:00.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:00.575][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.578][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:00.579][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:00.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.582][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.589][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.595][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.601][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.607][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.608][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.612][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.624][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.626][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.627][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.630][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.631][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.634][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.636][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.637][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:00.641][self$createEntryFromContent] Accession numbers: 85086.
biodb.TRACE[2025-09-22 21:30:00.643][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.653][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.655][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.656][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.657][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.659][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:00.660][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:00.662][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:00.663][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:00.670][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:00.671][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:00.672][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:00.674][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:00.675][private$loadEntries] Creating entries from ids [1]: "88123".
biodb.DEBUG[2025-09-22 21:30:00.677][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:30:00.679][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:30:00.688][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/88123.xml.
biodb.DEBUG[2025-09-22 21:30:00.689][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:30:00.691][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:30:00.699][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:30:00.702][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:00.703][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:00.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:00.711][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:00.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:00.714][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:00.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:00.718][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.720][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.721][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.723][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.724][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.729][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.730][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:00.732][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:00.733][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.734][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.736][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:00.738][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:00.739][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.741][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.742][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:00.744][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:00.745][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.746][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.748][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:00.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:00.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.754][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:00.756][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:00.757][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.759][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.761][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:00.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:00.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.767][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:00.768][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:00.770][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.771][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.773][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:00.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:00.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.779][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:00.780][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:00.782][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.783][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.785][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:00.786][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.788][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.789][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.791][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:00.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.797][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:00.798][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:00.800][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.801][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.803][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:00.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:00.806][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.809][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:00.811][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:00.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.814][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.816][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:00.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:00.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.822][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:00.824][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:00.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.827][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.829][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:00.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:00.832][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.835][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:00.836][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:00.838][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.839][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.841][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:00.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:00.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.848][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.854][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.857][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.860][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.862][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.865][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.866][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:00.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.871][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.873][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.886][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.887][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.889][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.891][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.892][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.894][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.900][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.906][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.912][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:00.914][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:00.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:00.918][self$createEntryFromContent] Accession numbers: 88123.
biodb.TRACE[2025-09-22 21:30:00.920][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.923][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.926][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.929][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.930][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:00.932][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:00.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:00.937][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:00.938][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:00.939][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:00.941][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:00.948][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:00.950][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:00.951][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:00.952][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:00.954][private$loadEntries] Creating entries from ids [1]: "134117".
biodb.DEBUG[2025-09-22 21:30:00.955][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:30:00.958][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:30:00.970][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/134117.xml.
biodb.DEBUG[2025-09-22 21:30:00.972][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:30:00.977][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:30:00.979][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:30:00.982][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:00.983][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:00.986][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:00.999][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:01.001][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:01.006][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:01.008][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:01.015][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.017][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.020][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.022][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.025][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.028][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:01.029][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:01.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.032][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.034][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:01.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:01.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.040][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:01.042][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:01.043][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.044][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.046][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:01.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:01.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.053][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:01.054][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:01.056][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.057][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.059][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:01.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:01.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.065][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:01.067][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:01.068][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.070][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.072][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:01.073][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:01.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.076][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.078][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:01.079][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:01.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.082][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.084][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:01.086][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.087][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.088][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.090][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:01.099][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.105][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:01.107][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:01.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.109][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.111][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:01.113][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:01.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.117][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:01.118][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:01.120][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.121][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.123][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:01.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:01.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.129][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:01.130][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:01.132][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.133][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.135][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:01.136][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:01.138][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.139][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.141][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:01.142][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:01.144][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.145][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.147][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:01.148][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:01.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.151][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:01.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:01.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.159][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:01.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:01.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:01.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:01.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.176][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.177][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.185][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.189][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.191][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.192][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.195][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.201][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.207][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:01.213][self$createEntryFromContent] Accession numbers: 134117.
biodb.TRACE[2025-09-22 21:30:01.215][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.221][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.222][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.227][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.229][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.230][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:01.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:01.234][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:01.236][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:01.243][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:01.244][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:01.246][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:01.247][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.DEBUG[2025-09-22 21:30:01.249][private$loadEntries] Creating entries from ids [1]: "138307".
biodb.DEBUG[2025-09-22 21:30:01.250][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:30:01.252][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:30:01.261][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/138307.xml.
biodb.DEBUG[2025-09-22 21:30:01.262][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:30:01.263][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:30:01.265][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:30:01.267][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:01.268][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:01.269][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:01.274][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:01.275][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:01.283][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:01.284][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:01.288][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.289][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.291][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.293][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.297][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:01.298][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:01.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.300][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.302][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:01.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:01.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.306][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:01.308][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:01.309][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.310][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.311][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:01.312][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:01.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.316][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:01.317][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:01.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.319][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.321][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:01.322][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:01.323][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.324][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.325][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:01.327][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:01.328][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.329][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.330][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:01.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:01.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.335][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:01.336][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:01.337][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.338][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.340][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:01.341][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.342][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.343][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.344][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:01.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.349][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:01.350][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:01.352][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.353][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.354][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:01.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:01.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.359][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:01.360][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:01.361][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.362][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.364][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:01.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:01.366][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.367][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.368][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:01.370][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:01.371][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.372][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.373][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:01.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:01.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.378][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:01.379][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:01.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.382][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.383][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:01.384][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:01.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.388][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:01.389][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:01.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.393][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:01.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:01.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.397][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.402][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:01.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:01.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.408][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.409][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.410][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.411][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.412][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.415][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.416][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.427][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.432][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.437][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:01.441][self$createEntryFromContent] Accession numbers: 138307.
biodb.TRACE[2025-09-22 21:30:01.442][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.444][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.445][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.446][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.447][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.452][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:01.456][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:01.457][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:01.458][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:01.463][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:01.465][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:01.466][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:01.467][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:01.468][private$loadEntries] Creating entries from ids [1]: "176803".
biodb.DEBUG[2025-09-22 21:30:01.469][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:30:01.471][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:30:01.479][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176803.xml.
biodb.DEBUG[2025-09-22 21:30:01.485][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:30:01.486][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:30:01.487][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:30:01.489][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:01.490][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:01.491][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:01.497][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:01.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:01.499][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:01.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:01.502][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.504][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.506][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.512][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:01.513][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:01.522][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.523][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.525][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:01.530][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:01.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.535][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.539][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:01.541][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:01.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.549][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.557][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:01.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:01.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.564][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:01.565][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:01.574][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.575][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.577][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:01.578][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:01.579][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.591][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:01.592][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:01.598][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.599][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.601][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:01.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:01.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.613][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:01.615][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:01.624][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.625][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.629][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:01.631][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.632][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.641][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.642][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:01.648][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.649][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.650][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.654][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:01.655][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:01.656][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.657][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.659][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:01.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:01.672][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.674][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:01.676][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:01.677][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.678][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.679][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:01.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:01.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.683][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.684][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:01.685][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:01.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.691][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.693][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:01.694][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:01.696][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.697][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.706][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:01.708][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:01.709][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.710][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.711][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:01.712][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:01.714][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.715][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.716][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:01.717][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:01.718][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.719][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:01.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:01.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.725][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.726][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.727][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.730][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:01.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:01.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.734][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.736][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.738][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.739][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.740][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.743][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.748][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.751][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.753][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.757][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:01.761][self$createEntryFromContent] Accession numbers: 176803.
biodb.TRACE[2025-09-22 21:30:01.763][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.764][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.765][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.766][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.767][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.768][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.770][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.771][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.772][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.773][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:01.777][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:01.778][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:01.779][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:01.785][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:01.786][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:01.787][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:01.788][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:01.789][private$loadEntries] Creating entries from ids [1]: "176962".
biodb.DEBUG[2025-09-22 21:30:01.791][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:30:01.792][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:30:01.800][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/176962.xml.
biodb.DEBUG[2025-09-22 21:30:01.805][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:30:01.807][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:30:01.808][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:30:01.813][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:01.814][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:01.819][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:01.829][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:01.830][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:01.831][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:01.832][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:01.837][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.839][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.847][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.848][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.849][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:01.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:01.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.861][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:01.862][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:01.867][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.869][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.870][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:01.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:01.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.877][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.879][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:01.880][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:01.885][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.886][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.887][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:01.892][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:01.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.895][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:01.902][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:01.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.908][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.910][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:01.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:01.915][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.917][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.918][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:01.920][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:01.921][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.922][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.924][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:01.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:01.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.930][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:01.932][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:01.933][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.935][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.936][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:01.938][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.941][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.943][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:01.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:01.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.949][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:01.952][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:01.953][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.954][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.956][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:01.958][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:01.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.963][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:01.968][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:01.969][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.974][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.976][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:01.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:01.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:01.989][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:01.993][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:01.995][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:01.996][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.002][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:02.003][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:02.008][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.009][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.015][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:02.017][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:02.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.022][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.028][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:02.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:02.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.037][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:02.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:02.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.051][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:02.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:02.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.061][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.067][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.068][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.076][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:02.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:02.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.090][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.100][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.106][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.111][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.115][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.116][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.126][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.128][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:02.131][self$createEntryFromContent] Accession numbers: 176962.
biodb.TRACE[2025-09-22 21:30:02.132][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.137][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.138][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.139][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.140][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.141][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:02.146][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:02.147][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:02.148][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:02.153][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:02.154][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:02.155][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:02.156][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:02.158][private$loadEntries] Creating entries from ids [1]: "198655".
biodb.DEBUG[2025-09-22 21:30:02.159][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:30:02.161][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:30:02.168][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/198655.xml.
biodb.DEBUG[2025-09-22 21:30:02.172][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:30:02.173][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:30:02.175][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:30:02.177][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:02.178][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:02.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:02.192][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:02.193][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:02.196][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:02.197][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:02.200][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.201][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.206][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.207][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.208][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.217][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:02.221][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:02.222][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.223][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.231][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:02.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:02.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.238][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.239][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:02.245][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:02.246][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.247][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.252][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:02.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:02.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.257][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:02.258][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:02.264][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.265][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.266][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:02.271][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:02.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.275][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:02.276][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:02.277][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.278][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.280][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:02.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:02.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.284][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:02.286][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:02.287][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.288][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.289][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:02.291][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.292][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.293][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.294][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:02.299][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.306][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:02.307][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:02.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.313][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.314][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:02.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:02.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.319][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:02.324][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:02.325][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.328][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.330][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:02.338][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:02.339][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.342][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:02.343][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:02.344][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.345][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.347][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:02.348][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:02.349][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.350][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.351][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:02.353][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:02.354][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.355][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.356][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:02.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:02.359][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.360][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.361][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:02.362][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:02.363][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.366][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:02.367][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:02.368][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.369][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.370][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.372][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.373][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.374][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.375][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:02.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:02.378][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.384][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.385][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.387][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.388][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.390][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.391][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.392][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.393][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.395][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.398][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.401][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.403][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.407][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:02.413][self$createEntryFromContent] Accession numbers: 198655.
biodb.TRACE[2025-09-22 21:30:02.414][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.417][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.418][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.419][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.421][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.422][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.423][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.425][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.426][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.427][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.428][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:02.429][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:02.430][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:02.431][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:02.437][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:02.438][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:02.439][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:02.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:02.441][private$loadEntries] Creating entries from ids [1]: "215045".
biodb.DEBUG[2025-09-22 21:30:02.443][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:30:02.444][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:30:02.448][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/215045.xml.
biodb.DEBUG[2025-09-22 21:30:02.450][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:30:02.451][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:30:02.452][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:30:02.454][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:02.455][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:02.456][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:02.462][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:02.463][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:02.464][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:02.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:02.468][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.469][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.471][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.472][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.477][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:02.478][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:02.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.480][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.488][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:02.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:02.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.494][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:02.495][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:02.496][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.497][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.499][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:02.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:02.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.504][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:02.505][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:02.506][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.507][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.508][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:02.510][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:02.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.513][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:02.514][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:02.515][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.516][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.518][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:02.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:02.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.522][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:02.524][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:02.525][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.526][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.527][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:02.528][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.531][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.532][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:02.533][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.534][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.537][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:02.538][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:02.539][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.540][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.541][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:02.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:02.544][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.545][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.546][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:02.547][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:02.548][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.549][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.551][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:02.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:02.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.554][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.556][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:02.557][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:02.558][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.559][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.560][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:02.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:02.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.565][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:02.566][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:02.567][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.568][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.570][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:02.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:02.576][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.583][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:02.584][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:02.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.591][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.592][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:02.593][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:02.594][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.596][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.601][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.609][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:02.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:02.611][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.614][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.616][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.617][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.618][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.622][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.623][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.628][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.632][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.633][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.634][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.637][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:02.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:02.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:02.647][self$createEntryFromContent] Accession numbers: 215045.
biodb.TRACE[2025-09-22 21:30:02.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.654][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.658][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 21:30:02.691][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 21:30:02.702][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:02.717][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-22 21:30:02.726][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:02.732][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:02.733][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:02.734][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:02.741][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:02.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:02.744][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:02.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:02.747][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.762][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.774][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.789][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.791][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.809][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:02.811][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:02.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:02.817][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:02.834][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:02.839][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:02.840][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:02.844][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:02.847][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.858][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.859][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.870][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.890][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.892][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.897][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.898][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.907][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.908][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.909][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:02.916][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:02.917][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:02.918][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:02.932][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:02.933][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:02.934][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:02.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:02.937][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.941][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.943][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.944][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.952][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.954][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.960][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.964][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:02.973][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.975][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.976][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:02.978][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:02.980][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:02.981][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:02.982][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:02.989][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:02.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:02.992][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:02.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:02.995][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.997][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:02.998][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.000][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.001][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.004][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.007][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.008][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.013][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.018][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:03.024][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:03.026][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:03.027][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:03.034][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:03.035][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:03.037][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:03.038][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:03.040][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.046][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.047][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.052][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:03.058][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:03.059][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:03.060][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:03.067][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:03.069][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:03.070][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:03.071][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:03.073][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.078][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.079][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.085][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:03.091][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:03.092][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:03.094][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:03.101][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:03.103][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:03.104][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:03.105][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:03.107][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.109][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.110][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.113][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.119][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.121][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:03.125][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:03.126][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:03.127][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:03.135][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:03.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:03.137][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:03.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:03.140][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.142][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.147][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.166][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.169][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:03.175][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:03.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:03.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:03.185][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:03.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:03.188][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:03.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:03.191][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.193][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.196][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.200][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.202][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:03.207][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:03.209][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:03.210][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:03.217][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:03.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:03.220][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:03.221][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:03.223][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.229][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.235][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:03.241][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:03.242][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:03.243][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:03.250][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:03.251][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:03.253][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:03.254][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:03.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.265][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.266][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:03.272][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:03.273][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:03.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:03.281][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:03.283][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:03.284][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:03.285][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:03.287][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.293][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.296][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.297][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.298][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:03.304][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:03.305][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:03.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:03.313][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:03.315][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:03.316][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:03.318][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:03.319][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.325][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.329][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.331][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.343][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.344][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:03.346][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:03.347][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:03.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:03.358][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:03.360][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:03.362][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:03.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:03.366][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.369][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.375][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.377][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.381][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.383][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:03.390][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:03.392][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:03.393][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:03.402][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:03.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:03.406][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:03.408][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:03.411][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.420][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.428][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.430][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.432][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.434][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:03.436][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:03.437][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:03.439][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:03.447][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:03.449][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:03.451][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:03.453][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:03.455][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.457][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.458][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.462][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.463][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.468][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.471][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:03.474][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:03.475][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:03.476][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:03.484][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:03.485][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:03.487][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:03.488][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:03.490][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.494][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.499][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.507][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:03.513][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:03.514][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:03.516][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:03.524][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:03.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:03.528][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:03.530][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:03.532][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.543][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.545][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.549][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:03.558][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:03.559][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:03.561][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:03.578][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:03.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:03.583][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:03.585][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:03.587][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.589][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.596][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.598][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.600][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.605][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.609][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:03.613][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:03.615][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:03.617][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:03.625][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:03.626][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:03.628][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:03.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:03.632][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.637][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.639][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.641][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.649][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.653][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.680][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:03.681][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:03.682][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.685][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:03.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:03.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:03.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:03.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:03.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:03.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.699][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:03.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:03.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 21:30:03.736][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39124*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 21:30:03.739][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:03.743][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/63dc67d905e130c19900bd338bad7ba9.content.
sched.DEBUG[2025-09-22 21:30:03.745][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-22 21:30:03.751][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39125*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 21:30:03.755][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:03.766][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/287cac4c6e727656d926f26e3952924c.content.
sched.DEBUG[2025-09-22 21:30:03.768][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:03.772][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:03.774][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:03.775][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:03.789][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:03.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:03.792][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:03.794][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:03.795][private$loadEntries] Creating entries from ids [1]: "4648".
biodb.DEBUG[2025-09-22 21:30:03.797][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:30:03.799][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:30:03.813][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/4648.xml.
biodb.DEBUG[2025-09-22 21:30:03.815][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:30:03.820][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:30:03.826][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:30:03.828][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:03.834][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:03.835][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:03.853][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:03.855][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:03.857][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:03.862][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:03.870][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:03.876][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:03.877][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.879][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.881][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:03.882][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:03.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.887][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:03.889][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:03.890][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.892][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.894][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:03.895][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:03.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.900][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:03.902][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:03.903][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.904][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.907][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:03.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:03.910][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.911][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.913][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:03.914][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:03.916][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.917][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.919][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:03.920][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:03.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.925][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:03.926][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:03.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.929][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.931][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:03.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:03.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.937][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:03.938][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:03.940][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.941][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.943][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:03.945][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:03.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.947][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.949][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:03.951][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.954][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.955][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:03.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:03.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.960][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.962][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:03.963][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:03.964][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.966][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.968][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:03.969][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:03.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.974][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:03.975][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:03.977][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.978][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.980][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:03.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:03.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.986][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:03.988][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:03.989][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.991][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.993][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:03.994][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:03.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:03.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:03.999][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:04.007][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:04.009][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.010][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.012][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:04.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:04.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.019][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:04.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:04.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.024][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:04.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:04.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.029][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.030][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:04.032][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:04.033][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.036][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:04.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:04.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.040][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.042][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:04.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:04.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.051][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:04.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:04.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.058][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:04.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:04.064][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.065][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.069][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:04.070][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:04.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.074][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:04.077][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:04.079][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.080][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.082][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:04.087][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:04.088][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.089][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:04.092][self$createEntryFromContent] Accession numbers: 4648.
biodb.TRACE[2025-09-22 21:30:04.094][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.099][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.108][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.111][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.112][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.116][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:04.117][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:04.118][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:04.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:04.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:04.142][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:04.143][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:04.144][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:04.146][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.147][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.148][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.149][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.151][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.152][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.153][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.154][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.156][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.157][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.158][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:04.161][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:04.162][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:04.163][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:04.169][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:04.170][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:04.171][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:04.172][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:04.174][private$loadEntries] Creating entries from ids [1]: "62447".
biodb.DEBUG[2025-09-22 21:30:04.175][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:30:04.177][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:30:04.181][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/62447.xml.
biodb.DEBUG[2025-09-22 21:30:04.189][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:30:04.191][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:30:04.199][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:30:04.201][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:04.206][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:04.207][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:04.228][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:04.229][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:04.231][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:04.240][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:04.247][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:04.248][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:04.250][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.262][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.264][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:04.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:04.266][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.269][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:04.270][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:04.271][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.272][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.274][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:04.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:04.276][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.277][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.278][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:04.279][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:04.280][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.281][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.283][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:04.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:04.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.287][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:04.289][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:04.290][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.291][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.292][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:04.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:04.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.297][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:04.298][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:04.299][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.300][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.302][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:04.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:04.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.306][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:04.307][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:04.308][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.310][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.311][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:04.312][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:04.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.314][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.316][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:04.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:04.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.319][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.320][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.322][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.323][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.324][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.325][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.330][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:04.331][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:04.332][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.333][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.335][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:04.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:04.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.339][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:04.340][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:04.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.342][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.344][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:04.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:04.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.349][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:04.350][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:04.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.352][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.353][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:04.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:04.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.358][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:04.359][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:04.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.363][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:04.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:04.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.367][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:04.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:04.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.372][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:04.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:04.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.376][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:04.378][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:04.379][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.380][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.381][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:04.382][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:04.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.385][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:04.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:04.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:04.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:04.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:04.402][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:04.403][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.406][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:04.407][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:04.408][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.413][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:04.414][self$createEntryFromContent] Accession numbers: 62447.
biodb.TRACE[2025-09-22 21:30:04.416][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.417][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.418][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.423][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.429][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.430][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 21:30:04.474][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 21:30:04.476][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:04.480][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-22 21:30:04.481][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:04.484][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:04.485][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:04.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:04.491][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:04.492][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:04.493][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:04.494][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:04.496][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.500][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.505][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:04.509][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:04.510][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:04.511][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:04.517][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:04.518][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:04.519][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:04.520][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:04.521][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.522][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.523][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.524][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.526][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.527][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.528][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.529][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.530][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.535][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.540][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:04.544][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:04.545][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:04.546][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:04.552][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:04.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:04.554][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:04.555][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:04.556][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.557][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.561][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.573][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.574][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.576][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.577][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.579][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.580][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.581][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.582][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.583][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.584][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.585][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:04.587][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:04.588][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:04.589][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:04.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:04.601][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:04.602][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:04.604][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:04.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.610][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.611][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.614][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.619][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.622][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.624][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.627][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:04.629][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:04.630][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:04.631][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:04.654][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:04.658][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:04.660][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:04.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:04.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.669][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.673][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.674][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.675][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:04.678][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:04.679][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:04.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:04.686][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:04.687][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:04.688][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:04.689][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:04.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.692][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.693][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.695][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.704][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.706][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.707][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:04.712][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:04.713][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:04.715][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:04.728][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:04.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:04.731][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:04.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:04.734][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.741][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.742][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.746][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.748][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.749][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.750][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:04.764][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:04.765][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:04.766][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:04.777][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:04.781][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:04.791][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:04.792][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:04.794][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.798][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.799][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.801][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.803][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.806][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:04.811][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:04.812][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:04.813][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:04.824][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:04.825][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:04.826][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:04.828][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:04.830][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.831][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.836][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.839][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.840][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.841][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.843][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.845][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.846][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:04.847][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:04.849][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:04.850][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:04.857][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:04.858][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:04.860][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:04.861][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:04.863][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.864][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.865][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.867][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.874][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:04.879][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:04.880][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:04.882][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:04.888][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:04.890][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:04.891][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:04.892][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:04.894][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.898][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.900][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.906][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:04.912][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:04.913][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:04.915][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:04.922][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:04.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:04.925][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:04.926][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:04.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.930][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.931][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.934][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.936][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.937][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.939][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.940][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:04.946][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:04.948][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:04.949][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:04.956][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:04.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:04.959][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:04.960][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:04.962][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.973][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.975][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.980][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:04.981][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:04.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:04.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:04.987][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:04.989][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:04.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:04.997][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:04.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.000][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.003][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.004][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.009][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.015][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.018][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.019][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.021][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.022][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.023][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.031][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.032][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.033][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.035][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.037][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.043][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.047][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.049][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.052][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.055][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.056][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.057][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.065][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.068][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.069][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.071][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.074][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.075][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.077][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.083][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.089][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.090][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.092][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.099][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.103][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.104][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.106][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.108][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.109][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.111][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.112][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.114][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.115][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.119][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.122][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.125][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.126][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.135][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.136][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.138][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.142][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.146][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.153][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.161][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.165][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.169][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.170][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.172][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.179][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.181][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.182][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.185][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.187][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.188][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.189][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.191][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.197][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.198][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.199][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.202][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.203][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.205][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.212][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.213][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.214][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.216][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.217][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.223][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.225][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.226][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.227][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.229][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.230][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.232][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.233][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 21:30:05.260][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=squalene&searchCategory=ALL NAMES&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 21:30:05.264][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:05.269][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/80cdc67a2a6332dd4ceb98b7656194b9.content.
sched.DEBUG[2025-09-22 21:30:05.271][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:05.275][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.277][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.278][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.285][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.286][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.288][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.289][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.291][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.297][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.300][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.301][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.302][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.306][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.308][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.309][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.317][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.319][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.320][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.329][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.331][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.334][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.335][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.337][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.338][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.340][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.349][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.353][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.355][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.357][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.358][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.360][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.361][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.362][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.364][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.365][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.372][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.375][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.378][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.379][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.384][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.390][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.395][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.397][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.399][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.400][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.401][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.403][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.408][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.409][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.417][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.418][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.419][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.421][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.422][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.427][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.428][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.431][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.432][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.434][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.439][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.443][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.445][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.447][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.448][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.451][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.454][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.461][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.462][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.463][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.465][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.466][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.468][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.469][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.472][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.478][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.481][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.484][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.485][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.486][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.498][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.499][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.501][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.502][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.504][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.505][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.507][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.508][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.509][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.515][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.517][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.518][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.519][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.521][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.522][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.532][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.543][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.545][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.547][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.549][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.551][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.553][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.554][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.556][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.558][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.565][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.569][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.570][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.572][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.574][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.575][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.584][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.586][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.588][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.590][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.592][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.594][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.605][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.611][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.612][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.613][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.620][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.622][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.624][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.625][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.627][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.633][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.634][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.639][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.645][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.646][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.647][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.655][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.657][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.658][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.660][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.662][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.668][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.673][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.674][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.678][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.679][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.681][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.682][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.683][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.691][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.692][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.694][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.697][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.700][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.701][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.703][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.708][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.709][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.713][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.714][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.716][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.717][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.719][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.727][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.737][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.739][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.743][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.745][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.746][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.748][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.749][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.754][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.761][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.763][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.764][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.772][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.773][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.775][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.784][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.789][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.790][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.793][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.796][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.798][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.799][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.809][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.811][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.812][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.814][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.816][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.819][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.820][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.822][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.828][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.830][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.831][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.833][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.834][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.836][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.837][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.844][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.845][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.846][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.847][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.849][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.850][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.851][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.852][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.854][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.855][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.856][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.857][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.858][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.860][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.863][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.864][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.866][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.872][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.873][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.874][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.875][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.877][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.882][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.886][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.891][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.892][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.893][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.904][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.905][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.906][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.907][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.909][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.910][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.919][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.922][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.928][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.932][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.933][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.934][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.940][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.941][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.942][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.943][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.945][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.946][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.947][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.948][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.952][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.954][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.959][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.960][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.962][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:05.972][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:05.974][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:05.975][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:05.976][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:05.977][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.982][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.984][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.985][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.986][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:05.987][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.989][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:05.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:05.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:05.992][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:05.993][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:05.994][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:06.006][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:06.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:06.009][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:06.011][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:06.013][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.014][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.015][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.019][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.024][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.067][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-22 21:30:06.068][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-22 21:30:06.070][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.071][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-22 21:30:06.081][biodb::testThat]
biodb.INFO [2025-09-22 21:30:06.083][biodb::testThat] Running test function  test_annotateMzValues_input_vector  (" annotateMzValues() accepts a single vector. ").
biodb.INFO [2025-09-22 21:30:06.084][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:30:06.085][biodb::testThat]
biodb.TRACE[2025-09-22 21:30:06.089][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-22 21:30:06.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-22 21:30:06.091][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.092][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.093][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.094][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.098][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.118][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.130][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.135][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.141][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.142][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.143][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:06.155][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:06.156][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:06.161][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:06.171][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:06.172][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:06.173][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:06.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-22 21:30:06.181][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 21:30:06.191][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:06.193][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-22 21:30:06.194][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:06.197][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:06.198][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:06.199][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:06.204][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:06.205][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:06.206][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:06.207][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:06.209][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.210][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.211][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.212][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.214][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.215][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.216][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.217][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.218][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.221][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 21:30:06.224][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 21:30:06.227][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:06.229][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-22 21:30:06.230][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:06.233][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:06.234][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:06.235][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:06.242][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:06.243][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:06.245][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:06.246][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:06.247][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.252][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.258][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.259][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:06.261][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:06.262][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:06.263][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:06.269][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:06.270][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:06.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:06.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:06.273][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.278][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.282][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.283][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:06.284][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:06.287][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-22 21:30:06.289][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:06.290][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:06.291][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:06.304][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:06.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:06.318][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:06.319][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:06.325][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.332][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.333][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.334][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.341][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.342][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:06.343][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 21:30:06.349][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 21:30:06.350][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 21:30:06.351][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:06.356][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.357][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.358][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.363][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.364][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.366][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.368][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.373][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:06.374][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:06.375][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.380][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.381][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.387][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.388][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 21:30:06.389][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.396][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.398][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.404][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.405][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.406][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.413][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.414][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.433][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-22 21:30:06.434][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:06.435][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:06.436][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:06.448][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:06.450][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:06.451][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:06.452][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:06.453][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.455][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.456][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.458][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.463][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:06.464][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 21:30:06.465][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 21:30:06.466][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 21:30:06.467][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:06.468][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.469][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.470][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.472][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.473][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.474][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.475][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.476][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.477][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:06.479][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:06.480][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.481][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.482][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.487][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.488][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 21:30:06.489][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.493][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.494][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.499][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.504][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-22 21:30:06.505][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:06.506][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:06.507][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:06.512][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:06.519][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:06.520][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:06.522][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:06.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.525][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.528][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.531][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.532][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.533][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:06.534][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 21:30:06.535][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 21:30:06.536][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 21:30:06.537][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:06.538][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.539][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.541][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.543][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.544][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.546][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.547][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:06.548][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:06.549][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.550][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.553][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.554][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 21:30:06.555][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.557][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.559][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.564][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.569][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-22 21:30:06.570][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-22 21:30:06.571][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-22 21:30:06.586][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.588][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.589][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.591][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.592][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.593][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.595][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.600][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:06.679][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:06.680][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:06.681][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:06.687][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:06.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:06.689][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:06.690][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-22 21:30:06.693][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 21:30:06.696][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:06.701][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-22 21:30:06.702][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-22 21:30:06.710][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 21:30:06.717][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:06.723][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-22 21:30:06.725][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:06.728][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:06.729][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:06.730][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:06.739][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:06.741][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:06.742][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:06.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:06.745][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.746][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.747][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.749][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.750][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.751][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.752][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.753][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.755][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.756][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.757][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:06.760][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:06.761][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:06.762][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:06.768][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:06.769][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:06.770][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:06.772][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:06.773][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.774][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.778][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.783][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:06.788][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:06.789][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:06.790][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:06.797][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:06.798][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:06.799][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:06.800][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:06.802][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.803][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.807][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.812][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.823][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:06.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.827][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:06.869][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-22 21:30:06.909][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:06.911][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:06.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:06.919][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:06.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:06.922][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:06.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:06.925][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.927][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.928][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.929][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.931][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.936][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:06.938][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 21:30:06.939][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 21:30:06.941][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 21:30:06.942][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:06.943][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.945][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.948][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.949][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.951][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.952][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.954][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.955][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:06.957][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:06.958][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.959][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.962][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.964][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 21:30:06.965][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.971][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.977][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.979][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:06.980][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:06.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:06.993][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-22 21:30:06.995][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:06.997][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:06.998][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:07.005][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:07.007][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:07.008][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:07.009][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[2025-09-22 21:30:07.032][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.034][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.080][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:07.082][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 21:30:07.083][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 21:30:07.084][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 21:30:07.086][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:07.087][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.089][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.090][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.092][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.093][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.095][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.096][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.097][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.099][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:07.117][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:07.118][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.120][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.121][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.122][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.124][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 21:30:07.126][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.129][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.130][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.131][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.133][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.137][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.143][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-22 21:30:07.145][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:07.146][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:07.147][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:07.168][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:07.169][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:07.170][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:07.173][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:07.174][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.177][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.178][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.179][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.184][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:07.185][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 21:30:07.186][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 21:30:07.187][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 21:30:07.188][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:07.189][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.190][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.191][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.192][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.194][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.195][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.196][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.197][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.198][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:07.199][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:07.201][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.202][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.203][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.204][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.205][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 21:30:07.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.211][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.212][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.216][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.217][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.218][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.220][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-22 21:30:07.222][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-22 21:30:07.223][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-22 21:30:07.232][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-22 21:30:07.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-22 21:30:07.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-22 21:30:07.240][biodb::testThat]
biodb.INFO [2025-09-22 21:30:07.241][biodb::testThat] Running test function  test_annotateMzValues_ppm_tol  (" ppm tolerance works in annotateMzValues() ").
biodb.INFO [2025-09-22 21:30:07.243][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:30:07.244][biodb::testThat]
biodb.TRACE[2025-09-22 21:30:07.247][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-22 21:30:07.248][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-22 21:30:07.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.251][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.253][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.254][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.256][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.260][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.261][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.265][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:07.273][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:07.274][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:07.275][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:07.288][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:07.289][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:07.290][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:07.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-22 21:30:07.294][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 21:30:07.297][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:07.300][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-22 21:30:07.301][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:07.303][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:07.305][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:07.306][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:07.534][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:07.537][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:07.538][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:07.539][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:07.541][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.542][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.545][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.550][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 21:30:07.555][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 21:30:07.558][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:07.560][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-22 21:30:07.561][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:07.564][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:07.565][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:07.566][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:07.572][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:07.573][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:07.574][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:07.575][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:07.576][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.577][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.578][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.581][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.582][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.585][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:07.590][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:07.591][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:07.592][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:07.597][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:07.598][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:07.599][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:07.600][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:07.601][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.603][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.604][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.605][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.606][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.610][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:07.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:07.615][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-22 21:30:07.617][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:07.618][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:07.619][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:07.624][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:07.625][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:07.626][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:07.627][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:07.629][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.633][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.639][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.640][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.641][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:07.644][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 21:30:07.645][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 21:30:07.647][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 21:30:07.652][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:07.653][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.654][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.661][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.662][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.663][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.670][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.671][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.677][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.678][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:07.679][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:07.680][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.689][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.690][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.691][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.696][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 21:30:07.697][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.698][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.699][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.700][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.702][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.721][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.722][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.732][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-22 21:30:07.733][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:07.741][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:07.742][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:07.757][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:07.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:07.759][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:07.762][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:07.767][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.774][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.784][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.785][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.791][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.792][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.793][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:07.798][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 21:30:07.800][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 21:30:07.801][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 21:30:07.802][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:07.807][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.809][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.810][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.815][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.816][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.818][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.823][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.824][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.826][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:07.827][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:07.828][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.829][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.830][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.832][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.833][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 21:30:07.835][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.841][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.844][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.845][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.846][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.851][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-22 21:30:07.852][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:07.854][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:07.855][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:07.864][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:07.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:07.867][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:07.868][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:07.869][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.871][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.872][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.873][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.874][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.876][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.877][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.879][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:07.880][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 21:30:07.882][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 21:30:07.883][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 21:30:07.884][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:07.885][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.887][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.888][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.889][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.890][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.892][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.894][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.895][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:07.897][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:07.898][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.899][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.901][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.902][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.903][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 21:30:07.904][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.909][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.911][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.912][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.913][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.914][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.916][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:07.917][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.918][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.920][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-22 21:30:07.921][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-22 21:30:07.922][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-22 21:30:07.941][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:07.942][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:07.946][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.950][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.952][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:07.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:07.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.957][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:07.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:07.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:07.963][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:07.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:07.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:07.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:07.970][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:07.972][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:07.973][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:07.979][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:07.980][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:07.981][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:07.982][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-22 21:30:07.986][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 21:30:07.989][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:07.991][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-22 21:30:07.993][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-22 21:30:07.996][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 21:30:08.000][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:08.003][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-22 21:30:08.004][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:08.007][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:08.009][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:08.010][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:08.016][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:08.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:08.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:08.019][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:08.021][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.026][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.030][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.031][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.035][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:08.036][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:08.038][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:08.039][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:08.045][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:08.046][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:08.047][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:08.048][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:08.050][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.051][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.053][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.054][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.055][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.058][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.059][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.060][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:08.065][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:08.067][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:08.068][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:08.074][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:08.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:08.076][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:08.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:08.079][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.080][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.084][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.089][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:08.095][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-22 21:30:08.103][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:08.104][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:08.105][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:08.115][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:08.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:08.120][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:08.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:08.123][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.127][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.128][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.130][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.136][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.138][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 21:30:08.139][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 21:30:08.140][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 21:30:08.142][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.143][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.145][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.146][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.148][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.149][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.151][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.152][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.153][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.155][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.156][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.158][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.159][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.161][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.162][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.164][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 21:30:08.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.171][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.177][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.181][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.183][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-22 21:30:08.185][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:08.186][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:08.188][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:08.195][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:08.196][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:08.197][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:08.199][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:08.200][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.206][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.210][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.211][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.213][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 21:30:08.214][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 21:30:08.215][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 21:30:08.217][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.218][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.219][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.221][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.222][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.223][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.225][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.226][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.227][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.229][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.230][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.232][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.233][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.235][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.237][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 21:30:08.238][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.242][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.244][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.250][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.254][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.257][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-22 21:30:08.259][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:08.260][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:08.261][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:08.268][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:08.269][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:08.271][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:08.272][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:08.274][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.280][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.286][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.287][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 21:30:08.289][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 21:30:08.290][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 21:30:08.291][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.293][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.294][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.296][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.297][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.299][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.300][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.302][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.303][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.305][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.306][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.308][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.309][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.312][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.314][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 21:30:08.315][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.317][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.318][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.321][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.326][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.327][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.329][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.330][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.331][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.333][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-22 21:30:08.334][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-22 21:30:08.336][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-22 21:30:08.348][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-22 21:30:08.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-22 21:30:08.351][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.352][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-22 21:30:08.358][biodb::testThat]
biodb.INFO [2025-09-22 21:30:08.360][biodb::testThat] Running test function  test_annotateMzValues_input_dataframe_untouched  (" Input data frame is not modified by annotateMzValues() ").
biodb.INFO [2025-09-22 21:30:08.361][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:30:08.362][biodb::testThat]
biodb.TRACE[2025-09-22 21:30:08.366][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-09-22 21:30:08.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-09-22 21:30:08.369][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.371][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.372][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.374][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.375][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.379][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.381][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.383][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.384][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.386][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.387][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.388][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.389][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.390][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:08.400][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:08.401][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:08.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:08.407][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:08.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:08.409][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:08.410][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-22 21:30:08.413][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.72*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 21:30:08.416][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:08.418][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/8fc54eee7e982ce554bee8000d8203f7.content.
sched.DEBUG[2025-09-22 21:30:08.420][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:08.423][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:08.424][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:08.425][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:08.430][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:08.431][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:08.432][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:08.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:08.435][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.436][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.437][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.438][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.439][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.449][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.450][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
sched.DEBUG[2025-09-22 21:30:08.459][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.73*&searchCategory=MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 21:30:08.465][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:08.472][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/6def615835d7c1dfccd5a5f135bd2f9d.content.
sched.DEBUG[2025-09-22 21:30:08.474][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:08.481][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:08.483][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:08.484][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:08.496][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:08.498][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:08.499][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:08.500][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:08.501][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.504][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.505][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.506][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.509][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.512][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.513][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:08.517][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:08.518][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:08.519][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:08.525][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:08.526][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:08.527][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:08.528][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:08.530][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.532][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.533][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.534][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.535][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.536][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.539][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.540][self$getBiodb()$getEntryFields()$get] Asked field names are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:08.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:08.545][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-22 21:30:08.546][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:08.547][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:08.549][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:08.554][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:08.555][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:08.556][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:08.557][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:08.558][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.559][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.562][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.563][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.566][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.567][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.568][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 21:30:08.569][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 21:30:08.570][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 21:30:08.572][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.573][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.574][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.575][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.576][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.577][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.578][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.580][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.581][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.582][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.583][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.584][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.585][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.586][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.587][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.588][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 21:30:08.590][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.599][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.604][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [192288].
biodb.DEBUG[2025-09-22 21:30:08.605][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:08.606][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:08.607][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:08.618][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:08.619][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:08.620][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:08.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:08.623][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.627][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.632][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.633][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 21:30:08.634][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 21:30:08.635][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 21:30:08.636][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.637][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.638][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.639][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.640][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.642][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.643][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.644][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.645][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.646][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.647][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.648][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.649][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.650][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.651][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.652][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 21:30:08.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.662][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.665][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.667][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-22 21:30:08.668][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:08.669][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:08.670][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:08.680][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:08.681][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:08.682][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:08.683][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:08.684][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.686][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.686][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.693][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.694][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 21:30:08.695][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 21:30:08.696][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 21:30:08.697][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.698][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.699][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.700][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.702][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.703][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.704][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.705][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.706][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.707][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.708][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.709][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.710][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.711][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.712][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.713][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 21:30:08.714][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.716][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.717][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.718][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.719][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.720][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.721][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.722][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.723][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.724][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.728][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [209892].
biodb.DEBUG[2025-09-22 21:30:08.729][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-22 21:30:08.730][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-22 21:30:08.751][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.752][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.753][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.755][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.756][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.759][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.760][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.764][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.765][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:08.774][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:08.775][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:08.776][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:08.781][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:08.782][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:08.783][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:08.784][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-22 21:30:08.787][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.38*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 21:30:08.790][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:08.792][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/2e865a03592d6effdf242ff63104f35a.content.
sched.DEBUG[2025-09-22 21:30:08.793][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-22 21:30:08.797][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=410.39*&searchCategory=MONOISOTOPIC MASS&maximumResults=0&starsCategory=ALL".
fscache.INFO [2025-09-22 21:30:08.800][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:08.803][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/f0c73645ca32490f91d503a462d812b2.content.
sched.DEBUG[2025-09-22 21:30:08.804][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:08.806][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:08.807][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:08.809][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:08.814][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:08.815][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:08.816][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:08.817][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:08.818][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.821][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.823][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.824][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.825][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.826][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.827][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:08.832][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:08.833][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:08.834][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:08.839][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:08.840][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:08.841][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:08.842][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:08.844][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.845][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.846][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.847][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.848][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.849][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.853][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.854][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.855][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:08.857][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:08.858][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:08.859][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:08.864][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:08.865][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:08.866][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:08.867][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:08.868][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.870][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.871][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.872][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.873][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.875][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.876][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.878][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.879][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:08.880][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.881][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:08.882][private$bdb$entriesToDataframe] 3 entrie(s) to convert in data frame.
biodb.DEBUG[2025-09-22 21:30:08.884][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:08.885][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:08.886][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:08.892][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:08.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:08.894][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:08.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:08.896][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.897][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.898][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.901][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.902][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.903][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.904][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.905][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.906][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 21:30:08.907][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 21:30:08.908][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 21:30:08.909][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.911][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.912][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.913][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.914][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.915][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.916][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.917][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.919][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.920][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.921][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.922][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.923][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.924][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.925][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.926][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 21:30:08.928][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.932][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.933][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.934][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.937][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.938][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.939][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.940][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.942][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [4648].
biodb.DEBUG[2025-09-22 21:30:08.943][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:08.944][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:08.945][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:08.950][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:08.951][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:08.952][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:08.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:08.955][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.956][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.957][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.958][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.959][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.964][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.965][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 21:30:08.966][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 21:30:08.967][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 21:30:08.968][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.969][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.970][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.973][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.974][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.975][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.977][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.978][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.979][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:08.980][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.982][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.984][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.985][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 21:30:08.986][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.991][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:08.995][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.996][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:08.997][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:08.999][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.000][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [15440].
biodb.DEBUG[2025-09-22 21:30:09.001][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:09.002][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:09.003][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:09.014][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:09.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:09.018][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:09.023][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:09.025][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.027][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.035][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.038][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.039][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.040][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.043][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:09.045][private$selectFields] Fields type: <NULL>
biodb.TRACE[2025-09-22 21:30:09.046][private$selectFields] Fields is null: FALSE
biodb.TRACE[2025-09-22 21:30:09.047][private$selectFields] Fields.type is null: TRUE
biodb.TRACE[2025-09-22 21:30:09.049][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:09.050][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.052][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.053][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.054][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.056][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.057][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.060][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.061][private$selectFields] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:09.062][private$organizeFieldsByGroups] Fields [1]: "chebi.id"
biodb.TRACE[2025-09-22 21:30:09.063][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.064][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.065][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.066][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.068][private$organizeFieldsByGroups] Groups [2]: "chebi.id, list()"
biodb.TRACE[2025-09-22 21:30:09.069][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.072][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.075][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.078][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.080][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.085][private$entriesToListOfDataframes] Entry converted to data frame: [1, 1]: [chebi.id] [62447].
biodb.DEBUG[2025-09-22 21:30:09.086][private$entriesToListOfDataframes] Converted 3 entry/ies to data frame(s).
biodb.DEBUG[2025-09-22 21:30:09.087][private$bdb$entriesToDataframe] Merging data frames with a singleentry each into a single data frame with all entries.
biodb.TRACE[2025-09-22 21:30:09.118][self$getBiodb()$getEntryFields()$get] Asked field names are: nominal.mass.
biodb.TRACE[2025-09-22 21:30:09.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: nominal.mass.
biodb.TRACE[2025-09-22 21:30:09.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-09-22 21:30:09.135][biodb::testThat]
biodb.INFO [2025-09-22 21:30:09.136][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-09-22 21:30:09.144][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:30:09.145][biodb::testThat]
biodb.DEBUG[2025-09-22 21:30:09.150][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-09-22 21:30:09.152][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:30:09.160][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:30:09.163][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGA.xml.
biodb.DEBUG[2025-09-22 21:30:09.164][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:30:09.169][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:30:09.170][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:30:09.176][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:09.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:09.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:09.190][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:09.192][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:09.193][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:09.194][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:09.197][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.198][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.201][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.202][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.207][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:09.208][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:09.209][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.210][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.212][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:09.213][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:09.214][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.215][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.217][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:09.218][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:09.219][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.220][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.221][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:09.222][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:09.224][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.225][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.226][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:09.227][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:09.229][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.230][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.231][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:09.232][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:09.234][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.235][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.237][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:09.238][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:09.239][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.240][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.241][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:09.242][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:09.244][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.245][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.247][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:09.248][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:09.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.250][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.252][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:09.253][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:09.254][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.255][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.257][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.262][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.263][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.264][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.267][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.268][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.269][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.270][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.272][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.273][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.274][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.275][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.277][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.278][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.282][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.284][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.285][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.287][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.300][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.302][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.313][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.320][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.324][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.325][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:09.328][self$createEntryFromContent] Accession numbers: .
biodb.DEBUG[2025-09-22 21:30:09.333][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-09-22 21:30:09.355][biodb::testThat]
biodb.INFO [2025-09-22 21:30:09.356][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-09-22 21:30:09.362][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:30:09.363][biodb::testThat]
biodb.DEBUG[2025-09-22 21:30:09.394][function(conn, opt)] IDS: [4]: "WRONGB, 15440, 2528, 7799"
biodb.DEBUG[2025-09-22 21:30:09.396][private$loadEntries] Creating entries from ids [3]: "WRONGB, 2528, 7799".
biodb.DEBUG[2025-09-22 21:30:09.398][conn$getEntryContent] Get ChEBI entry content(s) for 3 id(s)...
fscache.INFO [2025-09-22 21:30:09.407][cch$loadContents] Load 3 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:30:09.417][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/WRONGB.xml.
fscache.DEBUG[2025-09-22 21:30:09.426][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2528.xml.
fscache.DEBUG[2025-09-22 21:30:09.439][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/7799.xml.
biodb.DEBUG[2025-09-22 21:30:09.440][conn$getEntryContent] 3 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:30:09.442][self$createEntryFromContent] Creating ChEBI entries from 3 content(s).
biodb.DEBUG[2025-09-22 21:30:09.444][self$createEntryFromContent] Parsing 3 ChEBI entries.
biodb.DEBUG[2025-09-22 21:30:09.451][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:09.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:09.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:09.468][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:09.470][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:09.471][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:09.472][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:09.476][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.478][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.479][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.480][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.482][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.488][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:09.490][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:09.491][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.493][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.494][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:09.496][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:09.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.499][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.501][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:09.502][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:09.504][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.505][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.507][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:09.509][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:09.510][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.511][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.513][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:09.515][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:09.516][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.518][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.520][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:09.521][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:09.523][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.524][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.526][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:09.527][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:09.529][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.530][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.532][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:09.533][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:09.535][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.536][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.538][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:09.540][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:09.541][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.543][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.544][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:09.546][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:09.547][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.549][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.550][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.552][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.553][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.555][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.556][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.558][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.559][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.561][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.562][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.564][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.565][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.568][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.570][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.571][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.572][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.574][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.580][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.583][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.586][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.587][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.589][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.590][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:09.592][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:09.593][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:09.595][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:09.602][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:09.603][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:09.604][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:09.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:09.609][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.610][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.612][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.613][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.615][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.616][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.618][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.619][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.621][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:09.622][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:09.624][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.625][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.627][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:09.628][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:09.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.633][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:09.634][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:09.636][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.637][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.638][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:09.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:09.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.643][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:09.644][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:09.645][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.646][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.648][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:09.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:09.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.652][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:09.659][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:09.660][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.662][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.663][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:09.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:09.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.667][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:09.669][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:09.670][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.671][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.672][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:09.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:09.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.675][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.676][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:09.678][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:09.679][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.680][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.681][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:09.682][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:09.683][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.684][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.686][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:09.687][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:09.688][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.689][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.690][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:09.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:09.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.693][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.695][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:09.696][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:09.697][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.698][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.703][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:09.705][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:09.706][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.707][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.710][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:09.711][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:09.712][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.717][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.718][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:09.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:09.724][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.726][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.727][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:09.728][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:09.729][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.734][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.735][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:09.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:09.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.748][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.756][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.757][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.758][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.759][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.762][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.763][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.764][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:09.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.769][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.770][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.779][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:09.784][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:09.785][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:09.786][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:09.791][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:09.792][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:09.797][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:09.798][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:09.800][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.804][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.805][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.806][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.807][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:09.808][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:09.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.812][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:09.813][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:09.814][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.815][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.820][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:09.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:09.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.825][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.827][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:09.828][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:09.829][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.830][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.835][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:09.836][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:09.837][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.840][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:09.841][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:09.842][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.848][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.850][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:09.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:09.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.855][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.857][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:09.862][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:09.863][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.864][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.873][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:09.875][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:09.883][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.884][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.885][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:09.892][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:09.893][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.902][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.904][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:09.905][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:09.906][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.907][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.916][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:09.917][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:09.919][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.924][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.925][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:09.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:09.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.934][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.943][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:09.945][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:09.946][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.949][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.950][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:09.951][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:09.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.969][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:09.970][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:09.971][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.979][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.981][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:09.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:09.990][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:09.991][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:09.992][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:09.999][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:10.000][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.001][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:10.010][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:10.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:10.014][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.015][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:10.017][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:10.026][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:10.027][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.028][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:10.035][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:10.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:10.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.049][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:10.050][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:10.062][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:10.063][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:10.073][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:10.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:10.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:10.084][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:10.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:10.094][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.095][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:10.096][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:10.097][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:10.105][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.106][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:10.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:10.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:10.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.121][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:10.122][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:10.123][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:10.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:10.144][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:10.146][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:10.147][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:10.156][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:10.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:10.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:10.165][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:10.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:10.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:10.169][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:10.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:10.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:10.174][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:10.175][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:10.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:10.178][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:10.180][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:10.181][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:10.183][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:10.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:10.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:10.188][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:10.190][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:10.191][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.193][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:10.194][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:10.196][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:10.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:10.200][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:10.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:10.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.205][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:10.206][self$createEntryFromContent] Accession numbers: , 2528, 7799.
biodb.DEBUG[2025-09-22 21:30:10.207][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-09-22 21:30:10.209][function(conn, opt)] Entries: [4]: "NULL, <environment>, <environment>, <environment>"
biodb.INFO [2025-09-22 21:30:10.228][biodb::testThat]
biodb.INFO [2025-09-22 21:30:10.229][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-09-22 21:30:10.231][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:30:10.232][biodb::testThat]
biodb.INFO [2025-09-22 21:30:10.267][biodb::testThat]
biodb.INFO [2025-09-22 21:30:10.268][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-09-22 21:30:10.269][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:30:10.271][biodb::testThat]
biodb.INFO [2025-09-22 21:30:10.279][biodb::testThat]
biodb.INFO [2025-09-22 21:30:10.280][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-09-22 21:30:10.281][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:30:10.282][biodb::testThat]
sched.DEBUG[2025-09-22 21:30:10.285][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=1*&searchCategory=CHEBI ID&maximumResults=100&starsCategory=ALL".
fscache.INFO [2025-09-22 21:30:10.288][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:10.295][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/02ece1564def26723013d564c4071584.content.
sched.DEBUG[2025-09-22 21:30:10.296][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.TRACE[2025-09-22 21:30:10.311][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:10.312][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:10.313][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.314][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:10.315][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:10.317][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:10.318][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:10.319][ef$get] fields variable is a list.
biodb.INFO [2025-09-22 21:30:10.321][biodb::testThat]
biodb.INFO [2025-09-22 21:30:10.322][biodb::testThat] Running test function  test.annotateMzValues  (" annotateMzValues() works correctly. ").
biodb.INFO [2025-09-22 21:30:10.323][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:30:10.324][biodb::testThat]
biodb.ERROR[2025-09-22 21:30:10.346][conn$annotateMzValues] No column named "mz" was found inside data frame.
biodb.ERROR[2025-09-22 21:30:10.363][ef$checkIsDefined] Field(s) "foo" is/are not defined.
biodb.INFO [2025-09-22 21:30:10.378][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-22 21:30:10.380][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-22 21:30:10.381][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-22 21:30:10.382][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:10.383][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:10.384][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.386][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-22 21:30:10.398][biodb::testContext]
biodb.INFO [2025-09-22 21:30:10.399][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-22 21:30:10.400][biodb::testContext] Test context - Test conversions
biodb.INFO [2025-09-22 21:30:10.401][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-22 21:30:10.403][biodb::testContext]
biodb.INFO [2025-09-22 21:30:10.405][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-22 21:30:10.407][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-09-22 21:30:10.411][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 21:30:10.413][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-22 21:30:10.414][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-22 21:30:10.415][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.417][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[2025-09-22 21:30:10.418][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-22 21:30:10.419][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-22 21:30:10.420][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.422][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.423][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-22 21:30:10.424][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-22 21:30:10.425][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.426][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.427][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[2025-09-22 21:30:10.428][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-22 21:30:10.429][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-22 21:30:10.431][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-22 21:30:10.432][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.432][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.433][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.435][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-22 21:30:10.436][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-22 21:30:10.437][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-22 21:30:10.438][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.439][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.440][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.441][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-22 21:30:10.442][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-22 21:30:10.443][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.444][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.445][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.446][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-22 21:30:10.447][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-22 21:30:10.448][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-22 21:30:10.449][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.450][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.451][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[2025-09-22 21:30:10.452][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-22 21:30:10.454][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-22 21:30:10.455][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.456][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.457][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.458][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-22 21:30:10.459][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-22 21:30:10.460][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-22 21:30:10.461][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.462][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.463][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.464][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-22 21:30:10.465][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-22 21:30:10.466][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-22 21:30:10.467][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-22 21:30:10.468][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-22 21:30:10.470][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-22 21:30:10.471][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.472][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.473][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.474][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-22 21:30:10.475][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-22 21:30:10.476][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.477][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.478][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.DEBUG[2025-09-22 21:30:10.479][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-22 21:30:10.480][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-22 21:30:10.481][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.482][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.483][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.484][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-22 21:30:10.485][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-22 21:30:10.486][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.487][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.488][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[2025-09-22 21:30:10.489][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-22 21:30:10.490][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-22 21:30:10.492][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-22 21:30:10.493][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.494][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.495][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.496][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-22 21:30:10.497][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-22 21:30:10.512][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-22 21:30:10.514][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.515][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.521][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.522][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-22 21:30:10.523][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-22 21:30:10.524][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-22 21:30:10.525][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.526][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.535][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.536][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-22 21:30:10.538][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:10.542][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-22 21:30:10.543][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:10.545][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 21:30:10.549][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:10.550][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 21:30:10.552][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:10.555][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 21:30:10.556][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-22 21:30:10.557][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 21:30:10.558][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:10.560][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-22 21:30:10.561][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 21:30:10.562][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:10.563][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:10.564][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 21:30:10.564][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 21:30:10.564][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 21:30:10.564][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-22 21:30:10.564][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-22 21:30:10.565][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 21:30:10.566][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:10.567][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:10.569][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 21:30:10.570][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:10.571][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:10.572][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 21:30:10.573][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:10.574][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 21:30:10.575][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 21:30:10.576][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:10.577][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:10.579][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-22 21:30:10.580][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:10.582][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-22 21:30:10.583][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:10.584][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 21:30:10.585][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:10.586][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 21:30:10.587][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:10.588][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 21:30:10.589][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-22 21:30:10.591][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 21:30:10.592][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:10.593][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-22 21:30:10.594][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 21:30:10.595][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:10.596][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:10.597][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 21:30:10.597][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 21:30:10.597][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 21:30:10.597][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-22 21:30:10.597][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-22 21:30:10.599][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 21:30:10.600][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:10.601][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:10.602][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 21:30:10.603][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:10.604][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:10.605][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 21:30:10.606][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:10.607][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 21:30:10.608][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 21:30:10.609][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:10.610][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:10.612][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-22 21:30:10.614][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:10.615][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-22 21:30:10.616][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:10.617][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 21:30:10.618][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:10.619][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 21:30:10.621][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:10.622][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 21:30:10.623][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-22 21:30:10.624][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 21:30:10.625][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:10.626][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-22 21:30:10.627][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 21:30:10.629][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:10.630][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:10.631][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:10.632][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 21:30:10.633][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:10.634][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:10.635][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 21:30:10.636][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:10.637][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:10.638][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 21:30:10.640][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:10.641][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 21:30:10.642][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 21:30:10.643][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:10.644][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:10.645][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-22 21:30:10.647][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:10.648][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-22 21:30:10.649][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:10.650][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 21:30:10.651][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:10.653][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 21:30:10.654][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:10.655][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 21:30:10.656][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-22 21:30:10.657][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 21:30:10.658][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:10.659][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-22 21:30:10.660][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 21:30:10.661][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:10.662][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:10.664][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:10.665][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 21:30:10.666][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:10.667][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:10.668][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 21:30:10.669][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:10.670][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:10.671][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 21:30:10.672][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:10.673][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 21:30:10.674][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 21:30:10.675][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:10.677][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:10.678][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 21:30:10.679][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.680][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[2025-09-22 21:30:10.681][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.683][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.684][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.686][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.687][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.688][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.689][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.690][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[2025-09-22 21:30:10.691][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.692][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.693][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.695][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[2025-09-22 21:30:10.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.697][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.698][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.699][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[2025-09-22 21:30:10.700][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.701][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.702][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.704][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[2025-09-22 21:30:10.705][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.707][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.709][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.710][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[2025-09-22 21:30:10.711][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.712][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.713][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.715][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.718][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.719][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.720][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[2025-09-22 21:30:10.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.723][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.724][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.725][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[2025-09-22 21:30:10.726][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.728][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.730][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.735][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[2025-09-22 21:30:10.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.743][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.744][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.745][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.746][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.748][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.750][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.751][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.753][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.754][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.755][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[2025-09-22 21:30:10.756][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.758][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.767][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.768][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-22 21:30:10.770][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-22 21:30:10.771][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-22 21:30:10.773][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-22 21:30:10.774][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-22 21:30:10.776][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-22 21:30:10.777][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-22 21:30:10.779][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-22 21:30:10.780][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-22 21:30:10.782][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-22 21:30:10.783][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-22 21:30:10.785][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-22 21:30:10.786][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-22 21:30:10.788][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-22 21:30:10.789][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-22 21:30:10.791][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-22 21:30:10.793][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-22 21:30:10.794][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-22 21:30:10.795][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-22 21:30:10.797][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-22 21:30:10.798][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-22 21:30:10.800][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-22 21:30:10.801][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-22 21:30:10.803][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-22 21:30:10.804][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-22 21:30:10.806][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-22 21:30:10.807][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-22 21:30:10.809][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-22 21:30:10.810][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-22 21:30:10.812][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-22 21:30:10.813][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-22 21:30:10.815][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-22 21:30:10.816][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-22 21:30:10.818][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-22 21:30:10.819][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-22 21:30:10.821][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-22 21:30:10.822][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-22 21:30:10.824][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-22 21:30:10.825][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-22 21:30:10.827][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-22 21:30:10.829][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-22 21:30:10.830][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-22 21:30:10.832][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-22 21:30:10.833][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-22 21:30:10.834][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-22 21:30:10.836][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-22 21:30:10.838][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-22 21:30:10.839][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-22 21:30:10.841][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-22 21:30:10.842][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-22 21:30:10.844][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-22 21:30:10.845][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-22 21:30:10.847][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-22 21:30:10.848][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-22 21:30:10.850][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-22 21:30:10.851][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-22 21:30:10.853][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-22 21:30:10.854][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-22 21:30:10.856][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-22 21:30:10.857][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-22 21:30:10.859][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-22 21:30:10.860][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-22 21:30:10.862][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-22 21:30:10.863][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-22 21:30:10.865][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-22 21:30:10.867][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-22 21:30:10.868][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-22 21:30:10.870][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-22 21:30:10.871][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-22 21:30:10.873][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-22 21:30:10.874][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-22 21:30:10.876][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-22 21:30:10.878][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-22 21:30:10.879][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-22 21:30:10.881][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-22 21:30:10.882][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-22 21:30:10.884][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-22 21:30:10.885][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-22 21:30:10.887][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-22 21:30:10.888][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-22 21:30:10.890][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-22 21:30:10.892][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-22 21:30:10.893][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-22 21:30:10.895][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-22 21:30:10.897][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-22 21:30:10.898][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 21:30:10.899][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.900][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.901][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.902][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.903][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.904][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:10.905][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:10.906][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.907][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.909][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.910][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.911][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:10.912][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:10.913][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.914][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.916][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.917][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.918][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:10.919][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:10.920][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.921][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.923][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.924][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:10.926][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:10.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.928][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.929][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.930][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.931][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.932][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:10.933][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:10.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.935][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.937][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.938][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:10.940][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:10.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.942][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.943][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.944][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[2025-09-22 21:30:10.945][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.946][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:10.947][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:10.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.949][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.950][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.951][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:10.954][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:10.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:10.961][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:10.962][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.963][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.965][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:10.968][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:10.969][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.973][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:10.976][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:10.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.980][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[2025-09-22 21:30:10.981][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:10.983][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:10.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.985][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.987][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[2025-09-22 21:30:10.988][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.989][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:10.990][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:10.991][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.992][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:10.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:10.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:10.995][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:10.996][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:10.997][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:10.998][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:10.999][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.000][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:11.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:11.004][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:11.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.006][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.007][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.008][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[2025-09-22 21:30:11.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:11.012][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:11.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.014][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.015][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.016][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[2025-09-22 21:30:11.018][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-22 21:30:11.019][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-22 21:30:11.021][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:11.023][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-22 21:30:11.024][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.025][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 21:30:11.026][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.027][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 21:30:11.028][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.030][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-22 21:30:11.031][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-22 21:30:11.032][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 21:30:11.033][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.034][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-22 21:30:11.035][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 21:30:11.036][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-22 21:30:11.036][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-22 21:30:11.036][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-22 21:30:11.036][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-22 21:30:11.036][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-22 21:30:11.036][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-22 21:30:11.036][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-22 21:30:11.036][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-22 21:30:11.036][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-22 21:30:11.036][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-22 21:30:11.036][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-22 21:30:11.038][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:11.039][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 21:30:11.039][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 21:30:11.039][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 21:30:11.040][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-22 21:30:11.041][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:11.042][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:11.043][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 21:30:11.044][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:11.045][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:11.046][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 21:30:11.048][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-22 21:30:11.048][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-22 21:30:11.049][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 21:30:11.050][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 21:30:11.051][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.052][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-22 21:30:11.052][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-22 21:30:11.053][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-22 21:30:11.055][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-22 21:30:11.057][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-22 21:30:11.059][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-22 21:30:11.061][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-22 21:30:11.063][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-22 21:30:11.066][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-22 21:30:11.070][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-22 21:30:11.072][biodb::testThat]
biodb.INFO [2025-09-22 21:30:11.073][biodb::testThat] Running test function  test_chebi_convCasToChebi  (" convCasToChebi() works. ").
biodb.INFO [2025-09-22 21:30:11.074][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:30:11.075][biodb::testThat]
sched.DEBUG[2025-09-22 21:30:11.078][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-22 21:30:11.080][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:11.087][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-22 21:30:11.089][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-22 21:30:11.092][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 [2025-09-22 21:30:11.095][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:11.098][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-22 21:30:11.098][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:11.101][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:11.102][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:11.103][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:11.107][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.108][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.110][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.111][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".
sched.DEBUG[2025-09-22 21:30:11.113][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 [2025-09-22 21:30:11.115][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:11.122][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-22 21:30:11.123][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:11.129][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:11.130][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:11.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:11.140][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.141][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.142][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.143][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:11.176][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:11.177][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:11.178][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:11.183][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.188][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.189][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.190][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".
sched.DEBUG[2025-09-22 21:30:11.198][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 [2025-09-22 21:30:11.204][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:11.209][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-22 21:30:11.210][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:11.212][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:11.213][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:11.214][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:11.225][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.227][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.228][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".
sched.DEBUG[2025-09-22 21:30:11.230][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 [2025-09-22 21:30:11.233][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:11.239][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-22 21:30:11.240][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:11.242][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:11.243][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:11.249][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:11.256][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.258][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.259][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:11.264][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:11.265][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:11.266][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:11.273][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.274][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.275][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.276][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-22 21:30:11.284][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 [2025-09-22 21:30:11.288][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:11.295][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a18c63ccef4470d3f0d2883a74f87ee1.content.
sched.DEBUG[2025-09-22 21:30:11.296][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:11.298][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:11.298][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:11.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:11.321][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.326][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.327][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.328][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-22 21:30:11.336][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 [2025-09-22 21:30:11.347][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:11.349][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/b6b884df7b7bd565d1ac86525427e09b.content.
sched.DEBUG[2025-09-22 21:30:11.350][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:11.359][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:11.360][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:11.364][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:11.369][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.371][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
sched.DEBUG[2025-09-22 21:30:11.374][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 [2025-09-22 21:30:11.377][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:11.382][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/d853ab8a48594978d76c30b86726648a.content.
sched.DEBUG[2025-09-22 21:30:11.383][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:11.385][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:11.386][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:11.387][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:11.396][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.397][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.402][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.403][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-22 21:30:11.424][biodb::testThat]
biodb.INFO [2025-09-22 21:30:11.429][biodb::testThat] Running test function  test_chebi_convInchiToChebi  (" convInchiToChebi() works. ").
biodb.INFO [2025-09-22 21:30:11.434][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:30:11.435][biodb::testThat]
sched.DEBUG[2025-09-22 21:30:11.444][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 [2025-09-22 21:30:11.451][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:11.460][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/aa56e28005d49da17591454624aabcd2.content.
sched.DEBUG[2025-09-22 21:30:11.461][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:11.473][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:11.474][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:11.475][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:11.490][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.491][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.502][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.503][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".
sched.DEBUG[2025-09-22 21:30:11.512][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 [2025-09-22 21:30:11.522][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:11.529][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/c62078a064e3122e21e26c3428179396.content.
sched.DEBUG[2025-09-22 21:30:11.530][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:11.539][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:11.540][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:11.541][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:11.558][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.560][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.561][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.568][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.INFO [2025-09-22 21:30:11.574][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-22 21:30:11.575][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-22 21:30:11.576][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-22 21:30:11.577][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:11.578][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:11.579][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.580][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.581][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.582][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-22 21:30:11.585][biodb::testContext]
biodb.INFO [2025-09-22 21:30:11.586][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-22 21:30:11.587][biodb::testContext] Test context - Test web services
biodb.INFO [2025-09-22 21:30:11.588][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-22 21:30:11.589][biodb::testContext]
biodb.INFO [2025-09-22 21:30:11.591][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-22 21:30:11.593][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-09-22 21:30:11.597][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 21:30:11.598][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-22 21:30:11.599][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-22 21:30:11.600][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.601][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.602][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:11.604][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-22 21:30:11.605][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-22 21:30:11.606][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.607][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.608][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:11.609][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-22 21:30:11.610][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-22 21:30:11.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.612][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.613][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:11.614][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-22 21:30:11.619][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-22 21:30:11.621][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-22 21:30:11.622][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.627][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.628][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:11.629][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-22 21:30:11.632][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-22 21:30:11.633][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-22 21:30:11.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:11.637][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-22 21:30:11.642][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-22 21:30:11.643][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.644][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.647][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.DEBUG[2025-09-22 21:30:11.648][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-22 21:30:11.649][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-22 21:30:11.654][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-22 21:30:11.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.657][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:11.658][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-22 21:30:11.660][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-22 21:30:11.662][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.667][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.668][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[2025-09-22 21:30:11.671][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-22 21:30:11.672][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-22 21:30:11.673][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-22 21:30:11.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.686][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:11.688][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-22 21:30:11.696][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-22 21:30:11.698][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-22 21:30:11.699][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-22 21:30:11.700][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-22 21:30:11.708][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-22 21:30:11.709][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.716][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[2025-09-22 21:30:11.717][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-22 21:30:11.718][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-22 21:30:11.722][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.723][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.724][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:11.725][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-22 21:30:11.734][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-22 21:30:11.735][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.736][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.737][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[2025-09-22 21:30:11.738][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-22 21:30:11.740][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-22 21:30:11.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.742][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.743][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:11.747][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-22 21:30:11.748][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-22 21:30:11.750][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-22 21:30:11.755][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.757][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:11.758][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-22 21:30:11.759][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-22 21:30:11.770][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-22 21:30:11.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.773][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:11.774][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-22 21:30:11.775][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-22 21:30:11.776][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-22 21:30:11.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.779][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.DEBUG[2025-09-22 21:30:11.780][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-22 21:30:11.782][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:11.783][self$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[2025-09-22 21:30:11.784][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.785][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 21:30:11.787][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.788][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 21:30:11.789][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:11.790][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 21:30:11.791][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-22 21:30:11.792][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 21:30:11.793][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.794][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-22 21:30:11.796][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 21:30:11.797][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:11.798][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.799][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 21:30:11.799][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 21:30:11.799][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 21:30:11.799][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-22 21:30:11.799][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-22 21:30:11.800][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 21:30:11.801][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:11.802][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:11.803][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 21:30:11.804][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:11.805][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:11.806][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 21:30:11.807][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:11.809][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 21:30:11.810][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 21:30:11.811][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:11.812][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:11.813][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-22 21:30:11.815][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:11.816][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-22 21:30:11.817][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.818][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 21:30:11.820][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.821][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 21:30:11.822][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:11.823][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 21:30:11.824][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-22 21:30:11.826][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 21:30:11.827][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.828][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-22 21:30:11.830][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 21:30:11.831][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:11.832][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.833][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 21:30:11.833][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 21:30:11.833][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 21:30:11.833][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-22 21:30:11.833][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-22 21:30:11.835][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 21:30:11.836][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:11.837][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:11.838][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 21:30:11.839][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:11.840][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:11.841][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 21:30:11.843][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:11.844][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 21:30:11.845][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 21:30:11.846][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:11.847][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:11.849][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-22 21:30:11.851][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.852][self$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[2025-09-22 21:30:11.854][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.855][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 21:30:11.856][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.857][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 21:30:11.858][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:11.859][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 21:30:11.860][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-22 21:30:11.862][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 21:30:11.869][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:11.871][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-22 21:30:11.872][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 21:30:11.873][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:11.874][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.875][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:11.877][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 21:30:11.878][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:11.879][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:11.880][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 21:30:11.886][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:11.887][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:11.888][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 21:30:11.889][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:11.890][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 21:30:11.892][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 21:30:11.893][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:11.894][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:11.896][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-22 21:30:11.898][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.899][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-22 21:30:11.900][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.902][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 21:30:11.903][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.904][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 21:30:11.906][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:11.907][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 21:30:11.908][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-22 21:30:11.910][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 21:30:11.911][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:11.912][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-22 21:30:11.913][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 21:30:11.914][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:11.916][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:11.917][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:11.918][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 21:30:11.919][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:11.921][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:11.922][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 21:30:11.923][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:11.924][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:11.925][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 21:30:11.927][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:11.928][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 21:30:11.929][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 21:30:11.930][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:11.932][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:11.933][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 21:30:11.934][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.936][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:11.937][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.940][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.941][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.942][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:11.943][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.950][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[2025-09-22 21:30:11.951][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.952][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.958][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.959][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.964][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:11.966][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.967][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.968][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.975][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[2025-09-22 21:30:11.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.982][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.983][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.984][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.988][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:11.989][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.990][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.991][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.993][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:11.994][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:11.996][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:11.997][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:11.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:11.999][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.001][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.002][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.003][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.005][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.006][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.007][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.009][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.011][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.014][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.015][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.017][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.018][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.019][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.020][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[2025-09-22 21:30:12.022][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.026][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.027][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.030][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.031][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.033][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.035][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.036][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.037][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.039][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.040][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[2025-09-22 21:30:12.041][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.043][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.044][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.045][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.046][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[2025-09-22 21:30:12.048][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.049][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.050][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.052][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.053][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.054][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.056][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.057][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.058][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.060][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.061][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-22 21:30:12.063][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-22 21:30:12.065][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-22 21:30:12.068][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-22 21:30:12.070][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-22 21:30:12.072][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-22 21:30:12.074][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-22 21:30:12.076][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-22 21:30:12.078][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-22 21:30:12.080][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-22 21:30:12.082][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-22 21:30:12.084][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-22 21:30:12.086][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-22 21:30:12.088][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-22 21:30:12.090][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-22 21:30:12.092][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-22 21:30:12.094][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-22 21:30:12.096][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-22 21:30:12.098][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-22 21:30:12.100][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-22 21:30:12.102][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-22 21:30:12.104][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-22 21:30:12.106][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-22 21:30:12.108][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-22 21:30:12.110][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-22 21:30:12.112][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-22 21:30:12.114][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-22 21:30:12.116][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-22 21:30:12.118][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-22 21:30:12.120][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-22 21:30:12.122][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-22 21:30:12.124][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-22 21:30:12.126][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-22 21:30:12.129][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-22 21:30:12.131][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-22 21:30:12.133][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-22 21:30:12.135][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-22 21:30:12.137][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-22 21:30:12.139][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-22 21:30:12.141][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-22 21:30:12.143][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-22 21:30:12.145][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-22 21:30:12.150][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-22 21:30:12.152][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-22 21:30:12.157][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-22 21:30:12.159][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-22 21:30:12.161][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-22 21:30:12.162][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-22 21:30:12.164][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-22 21:30:12.166][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-22 21:30:12.172][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-22 21:30:12.175][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-22 21:30:12.177][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-22 21:30:12.179][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-22 21:30:12.181][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-22 21:30:12.186][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-22 21:30:12.188][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-22 21:30:12.192][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-22 21:30:12.193][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-22 21:30:12.195][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-22 21:30:12.197][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-22 21:30:12.207][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-22 21:30:12.209][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-22 21:30:12.216][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-22 21:30:12.225][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-22 21:30:12.227][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-22 21:30:12.231][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-22 21:30:12.233][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-22 21:30:12.245][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-22 21:30:12.246][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-22 21:30:12.255][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-22 21:30:12.257][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-22 21:30:12.258][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-22 21:30:12.260][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-22 21:30:12.262][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-22 21:30:12.264][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-22 21:30:12.265][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-22 21:30:12.267][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-22 21:30:12.268][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-22 21:30:12.270][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-22 21:30:12.272][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-22 21:30:12.274][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-22 21:30:12.275][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-22 21:30:12.277][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-22 21:30:12.279][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-22 21:30:12.280][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 21:30:12.281][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.282][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.283][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.285][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[2025-09-22 21:30:12.286][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.287][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:12.288][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:12.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.290][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.291][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.292][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:12.295][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:12.296][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.297][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.298][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.299][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.301][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:12.303][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:12.304][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.305][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.306][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.307][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.308][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.309][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:12.310][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:12.311][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.312][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.314][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.315][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.316][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.317][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:12.318][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:12.319][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.320][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.321][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.322][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.323][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.324][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:12.326][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:12.327][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.328][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.329][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.330][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.331][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.332][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:12.333][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:12.334][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.335][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.336][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.337][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.339][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.340][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:12.341][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:12.342][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.344][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.347][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.348][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:12.349][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:12.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.352][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.353][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.355][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[2025-09-22 21:30:12.356][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.357][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:12.359][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:12.360][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.361][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.363][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.364][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.365][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.366][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:12.367][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:12.368][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.370][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.371][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.372][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.374][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:12.376][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:12.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.382][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.383][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:12.385][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:12.387][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.388][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.391][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.392][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.393][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:12.402][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:12.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.404][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.405][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.407][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:12.410][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:12.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.416][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:12.419][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:12.421][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.422][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.425][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.427][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-22 21:30:12.429][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-22 21:30:12.432][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:12.433][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-22 21:30:12.435][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.436][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 21:30:12.438][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.439][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 21:30:12.440][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.442][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-22 21:30:12.443][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-22 21:30:12.445][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 21:30:12.446][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.447][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-22 21:30:12.449][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 21:30:12.450][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-22 21:30:12.450][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-22 21:30:12.450][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-22 21:30:12.450][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-22 21:30:12.450][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-22 21:30:12.450][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-22 21:30:12.450][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-22 21:30:12.450][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-22 21:30:12.450][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-22 21:30:12.450][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-22 21:30:12.450][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-22 21:30:12.452][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:12.453][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 21:30:12.453][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 21:30:12.453][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 21:30:12.455][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-22 21:30:12.456][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:12.458][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:12.459][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 21:30:12.460][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:12.462][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:12.463][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 21:30:12.464][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-22 21:30:12.464][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-22 21:30:12.466][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 21:30:12.467][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 21:30:12.469][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.470][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-22 21:30:12.470][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-22 21:30:12.472][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-22 21:30:12.474][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-22 21:30:12.477][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-22 21:30:12.479][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-22 21:30:12.481][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-22 21:30:12.483][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-22 21:30:12.488][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-22 21:30:12.492][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-22 21:30:12.494][biodb::testThat]
biodb.INFO [2025-09-22 21:30:12.496][biodb::testThat] Running test function  test.chebi.wsGetLiteEntity  (" Web service getLiteEntity works fine. ").
biodb.INFO [2025-09-22 21:30:12.497][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:30:12.498][biodb::testThat]
sched.DEBUG[2025-09-22 21:30:12.501][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-22 21:30:12.505][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:12.513][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-22 21:30:12.515][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-22 21:30:12.519][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/test/getLiteEntity?search=2571&searchCategory=CHEBI ID&maximumResults=10&starsCategory=ALL".
fscache.INFO [2025-09-22 21:30:12.523][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:12.528][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-09-22 21:30:12.530][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.INFO [2025-09-22 21:30:12.545][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-22 21:30:12.547][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-22 21:30:12.548][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-22 21:30:12.550][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:12.551][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:12.552][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.553][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.555][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.556][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-09-22 21:30:12.561][biodb::testContext]
biodb.INFO [2025-09-22 21:30:12.562][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-22 21:30:12.564][biodb::testContext] Test context - Non regression tests
biodb.INFO [2025-09-22 21:30:12.565][biodb::testContext] ********************************************************************************
biodb.INFO [2025-09-22 21:30:12.566][biodb::testContext]
biodb.INFO [2025-09-22 21:30:12.569][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.17.1.
biodb.DEBUG[2025-09-22 21:30:12.572][self$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodb/definitions.yml".
biodb.DEBUG[2025-09-22 21:30:12.577][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 21:30:12.579][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-09-22 21:30:12.580][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-09-22 21:30:12.581][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.583][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.584][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.585][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-09-22 21:30:12.587][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-09-22 21:30:12.588][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.589][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.592][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-09-22 21:30:12.594][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-09-22 21:30:12.595][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.596][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.597][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[2025-09-22 21:30:12.599][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-09-22 21:30:12.600][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-09-22 21:30:12.602][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-09-22 21:30:12.603][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.604][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.606][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.607][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-09-22 21:30:12.609][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-09-22 21:30:12.610][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-09-22 21:30:12.611][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.613][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.614][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.616][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-09-22 21:30:12.617][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-09-22 21:30:12.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.620][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.621][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.623][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-09-22 21:30:12.624][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-09-22 21:30:12.626][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-09-22 21:30:12.627][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.628][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.629][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.DEBUG[2025-09-22 21:30:12.631][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-09-22 21:30:12.632][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-09-22 21:30:12.634][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.636][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.637][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-09-22 21:30:12.639][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-09-22 21:30:12.640][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-09-22 21:30:12.642][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.643][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.644][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[2025-09-22 21:30:12.646][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-09-22 21:30:12.647][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-09-22 21:30:12.648][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-09-22 21:30:12.650][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-09-22 21:30:12.651][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-09-22 21:30:12.653][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-09-22 21:30:12.654][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.655][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.656][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.658][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-09-22 21:30:12.659][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-09-22 21:30:12.661][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.662][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.663][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[2025-09-22 21:30:12.664][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-09-22 21:30:12.666][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-09-22 21:30:12.667][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.669][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.670][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.671][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-09-22 21:30:12.673][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-09-22 21:30:12.674][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.678][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-09-22 21:30:12.679][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-09-22 21:30:12.681][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-09-22 21:30:12.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.685][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.686][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-09-22 21:30:12.688][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-09-22 21:30:12.694][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-09-22 21:30:12.696][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.698][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[2025-09-22 21:30:12.699][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-09-22 21:30:12.700][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-09-22 21:30:12.702][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-09-22 21:30:12.703][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.704][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.707][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-09-22 21:30:12.709][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:12.710][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-09-22 21:30:12.712][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.713][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 21:30:12.715][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.716][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 21:30:12.718][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:12.719][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 21:30:12.720][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-22 21:30:12.721][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 21:30:12.722][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.723][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-09-22 21:30:12.725][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 21:30:12.726][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:12.728][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.729][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 21:30:12.729][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 21:30:12.729][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 21:30:12.729][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-22 21:30:12.729][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-22 21:30:12.731][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 21:30:12.732][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:12.733][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:12.735][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 21:30:12.740][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:12.742][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:12.744][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 21:30:12.746][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:12.747][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 21:30:12.748][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 21:30:12.749][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:12.750][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:12.752][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-09-22 21:30:12.754][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:12.755][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-09-22 21:30:12.756][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.761][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 21:30:12.762][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.763][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 21:30:12.764][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:12.767][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 21:30:12.768][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-22 21:30:12.769][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 21:30:12.770][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.772][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-09-22 21:30:12.773][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 21:30:12.778][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:12.779][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.780][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 21:30:12.780][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 21:30:12.780][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 21:30:12.780][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-09-22 21:30:12.780][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-09-22 21:30:12.781][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 21:30:12.782][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:12.783][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:12.789][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 21:30:12.790][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:12.791][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:12.794][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 21:30:12.799][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:12.800][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 21:30:12.801][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 21:30:12.802][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:12.803][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:12.806][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-09-22 21:30:12.808][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.809][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-09-22 21:30:12.811][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.816][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 21:30:12.817][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.818][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 21:30:12.819][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:12.820][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 21:30:12.821][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-09-22 21:30:12.824][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 21:30:12.825][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:12.827][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-09-22 21:30:12.828][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 21:30:12.829][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:12.830][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.831][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:12.832][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 21:30:12.833][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:12.834][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:12.835][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 21:30:12.836][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:12.837][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:12.839][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 21:30:12.840][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:12.841][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 21:30:12.842][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 21:30:12.843][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:12.844][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:12.845][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-09-22 21:30:12.847][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.849][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-09-22 21:30:12.850][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.851][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 21:30:12.852][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.853][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 21:30:12.854][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:12.855][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-09-22 21:30:12.856][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-09-22 21:30:12.858][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 21:30:12.859][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:12.860][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-09-22 21:30:12.861][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 21:30:12.862][self$setPropertyValue] Setting property "parsing.expr" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:12.863][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:12.864][self$setPropertyValue] Setting property "searchable.fields" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:12.866][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-09-22 21:30:12.867][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:12.868][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:12.869][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 21:30:12.870][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:12.871][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:12.872][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 21:30:12.873][self$setPropertyValue] Setting property "urls" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:12.874][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 21:30:12.875][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 21:30:12.880][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:12.881][self$setPropertyValue] Setting property "xml.ns" to "<NULL>".
biodb.DEBUG[2025-09-22 21:30:12.883][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 21:30:12.884][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.885][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[2025-09-22 21:30:12.886][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.887][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.889][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.890][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.891][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.892][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.893][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.894][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.895][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.896][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.897][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.898][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.899][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.900][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.903][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.915][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.920][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.921][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.923][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.924][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.925][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.930][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.934][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.935][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.936][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.937][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.939][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.939][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.940][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.945][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.DEBUG[2025-09-22 21:30:12.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.947][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.948][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.949][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.950][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.951][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.952][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.953][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.954][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.956][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.957][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.958][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.959][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.960][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.961][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.962][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.967][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.967][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.968][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.969][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.971][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:12.972][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.973][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.973][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.974][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.975][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[2025-09-22 21:30:12.976][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:12.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:12.978][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:12.979][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:12.980][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[2025-09-22 21:30:12.981][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-09-22 21:30:12.982][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-09-22 21:30:12.983][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-09-22 21:30:12.985][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-09-22 21:30:12.986][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-22 21:30:12.988][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-09-22 21:30:12.989][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-09-22 21:30:12.990][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-09-22 21:30:12.992][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-09-22 21:30:12.993][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-09-22 21:30:12.995][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-22 21:30:12.996][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-09-22 21:30:12.997][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-09-22 21:30:12.999][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-09-22 21:30:13.000][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-09-22 21:30:13.001][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-09-22 21:30:13.003][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-09-22 21:30:13.004][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-09-22 21:30:13.005][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-22 21:30:13.007][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-09-22 21:30:13.008][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-09-22 21:30:13.009][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-09-22 21:30:13.011][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-09-22 21:30:13.012][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-09-22 21:30:13.013][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-09-22 21:30:13.015][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-09-22 21:30:13.016][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-09-22 21:30:13.018][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-09-22 21:30:13.019][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-09-22 21:30:13.020][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-09-22 21:30:13.022][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-09-22 21:30:13.023][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-09-22 21:30:13.024][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-09-22 21:30:13.026][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-09-22 21:30:13.027][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-09-22 21:30:13.028][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-09-22 21:30:13.030][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-09-22 21:30:13.031][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-09-22 21:30:13.032][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-09-22 21:30:13.033][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-09-22 21:30:13.035][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-09-22 21:30:13.036][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-09-22 21:30:13.037][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-09-22 21:30:13.039][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-09-22 21:30:13.040][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-09-22 21:30:13.041][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-09-22 21:30:13.043][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-09-22 21:30:13.044][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-09-22 21:30:13.045][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-09-22 21:30:13.046][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-09-22 21:30:13.048][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-09-22 21:30:13.049][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-09-22 21:30:13.050][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-09-22 21:30:13.052][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-09-22 21:30:13.053][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-09-22 21:30:13.054][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-09-22 21:30:13.056][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-09-22 21:30:13.057][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-09-22 21:30:13.058][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-09-22 21:30:13.060][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-09-22 21:30:13.061][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-09-22 21:30:13.062][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-09-22 21:30:13.064][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-09-22 21:30:13.065][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-09-22 21:30:13.066][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-09-22 21:30:13.067][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-09-22 21:30:13.069][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-22 21:30:13.070][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-22 21:30:13.071][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-09-22 21:30:13.073][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-09-22 21:30:13.074][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-09-22 21:30:13.075][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-09-22 21:30:13.077][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-09-22 21:30:13.078][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-09-22 21:30:13.079][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-09-22 21:30:13.081][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-09-22 21:30:13.082][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-09-22 21:30:13.083][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-09-22 21:30:13.085][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-09-22 21:30:13.086][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-09-22 21:30:13.087][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-09-22 21:30:13.089][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-09-22 21:30:13.090][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-09-22 21:30:13.091][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-09-22 21:30:13.093][initialize] This is biodb version 1.17.1.
biodb.DEBUG[2025-09-22 21:30:13.094][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-09-22 21:30:13.095][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:13.095][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:13.096][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:13.097][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:13.098][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:13.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:13.100][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:13.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:13.101][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:13.102][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:13.103][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:13.104][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:13.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:13.115][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:13.116][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:13.117][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:13.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:13.119][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:13.120][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:13.121][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:13.122][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:13.123][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:13.123][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:13.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:13.125][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[2025-09-22 21:30:13.126][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:13.127][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:13.128][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:13.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:13.130][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:13.131][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:13.132][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:13.133][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:13.134][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:13.135][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:13.136][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:13.137][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:13.138][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:13.139][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:13.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:13.141][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:13.142][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:13.143][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:13.144][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:13.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:13.146][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:13.147][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:13.148][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:13.149][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:13.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:13.150][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:13.151][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:13.152][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:13.153][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:13.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:13.155][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:13.156][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:13.157][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:13.158][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:13.159][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:13.160][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:13.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:13.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:13.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:13.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:13.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:13.166][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[2025-09-22 21:30:13.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:13.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:13.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:13.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:13.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:13.172][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:13.173][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[2025-09-22 21:30:13.174][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:13.175][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:13.176][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:13.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:13.177][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:13.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:13.179][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[2025-09-22 21:30:13.180][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:13.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:13.182][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:13.183][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:13.184][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:13.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:13.186][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:13.187][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:13.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:13.189][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:13.190][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:13.191][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:13.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:13.193][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:13.194][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:13.195][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:13.196][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:13.197][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:13.198][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:13.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:13.200][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[2025-09-22 21:30:13.200][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:13.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:13.202][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:13.203][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:13.204][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:13.205][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:13.206][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.DEBUG[2025-09-22 21:30:13.207][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-09-22 21:30:13.208][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:13.209][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:13.210][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:13.211][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:13.212][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:13.213][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-09-22 21:30:13.215][biodb$loadDefinitions] Load definitions from file "/home/biocbuild/bbs-3.22-bioc/R/site-library/biodbChebi/definitions.yml".
biodb.DEBUG[2025-09-22 21:30:13.217][self$getDbsInfo()$define] Define connector chebi.
biodb.DEBUG[2025-09-22 21:30:13.219][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:13.220][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-09-22 21:30:13.221][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:13.222][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-09-22 21:30:13.223][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:13.224][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-09-22 21:30:13.225][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:13.226][self$setPropertyValue] Setting property "entry.content.encoding" to "UTF-8".
biodb.DEBUG[2025-09-22 21:30:13.228][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-09-22 21:30:13.229][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-09-22 21:30:13.230][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:13.231][self$setPropertyValue] Setting property "name" to "ChEBI".
biodb.DEBUG[2025-09-22 21:30:13.232][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-09-22 21:30:13.233][self$setPropertyValue] Setting property "parsing.expr" to "substring-after(//chebi:return/chebi:chebiId,'CHEBI:')".
biodb.DEBUG[2025-09-22 21:30:13.233][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:charge".
biodb.DEBUG[2025-09-22 21:30:13.233][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:Formulae/chebi:source[text()='ChEBI']/../chebi:data", "(//chebi:Formulae/chebi:data)[1]")".
biodb.DEBUG[2025-09-22 21:30:13.233][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchi".
biodb.DEBUG[2025-09-22 21:30:13.233][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:inchiKey".
biodb.DEBUG[2025-09-22 21:30:13.233][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:DatabaseLinks/chebi:type[text()='KEGG COMPOUND accession']/../chebi:data".
biodb.DEBUG[2025-09-22 21:30:13.233][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:mass".
biodb.DEBUG[2025-09-22 21:30:13.233][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:monoisotopicMass".
biodb.DEBUG[2025-09-22 21:30:13.233][self$setPropertyValue] Setting property "parsing.expr" to "c("//chebi:chebiAsciiName", "//chebi:Synonyms/chebi:data")".
biodb.DEBUG[2025-09-22 21:30:13.233][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:entityStar".
biodb.DEBUG[2025-09-22 21:30:13.233][self$setPropertyValue] Setting property "parsing.expr" to "//chebi:return/chebi:smiles".
biodb.DEBUG[2025-09-22 21:30:13.234][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-09-22 21:30:13.235][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-09-22 21:30:13.235][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-09-22 21:30:13.235][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-09-22 21:30:13.236][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-09-22 21:30:13.237][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:13.238][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:13.239][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-09-22 21:30:13.240][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-09-22 21:30:13.241][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-09-22 21:30:13.242][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-09-22 21:30:13.243][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/chebi/".
biodb.DEBUG[2025-09-22 21:30:13.243][self$setPropertyValue] Setting property "urls" to "https://www.ebi.ac.uk/webservices/chebi/2.0/".
biodb.DEBUG[2025-09-22 21:30:13.244][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-09-22 21:30:13.245][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-09-22 21:30:13.246][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-09-22 21:30:13.247][self$setPropertyValue] Setting property "xml.ns" to "https://www.ebi.ac.uk/webservices/chebi".
biodb.DEBUG[2025-09-22 21:30:13.247][self$setPropertyValue] Setting property "xml.ns" to "http://www.w3.org/2001/XMLSchema".
biodb.DEBUG[2025-09-22 21:30:13.249][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-09-22 21:30:13.251][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-09-22 21:30:13.253][self$getEntryFields()$define] Define field n_stars.
biodb.DEBUG[2025-09-22 21:30:13.254][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-09-22 21:30:13.256][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-09-22 21:30:13.258][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-09-22 21:30:13.262][super$initialize] Initialize connector chebi.
biodb.DEBUG[2025-09-22 21:30:13.266][biodb$getFactory()$createConn] Creating new connector chebi for database class chebi .
biodb.INFO [2025-09-22 21:30:13.267][biodb::testThat]
biodb.INFO [2025-09-22 21:30:13.285][biodb::testThat] Running test function  test.chebi.encoding.issue.in.xml  (" ChEBI encoding issue in XML is handled. ").
biodb.INFO [2025-09-22 21:30:13.286][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-09-22 21:30:13.287][biodb::testThat]
sched.DEBUG[2025-09-22 21:30:13.290][self$getBiodb()$getRequestScheduler( ...] Getting content of get URL request "https://www.ebi.ac.uk/webservices/chebi/2.0/webservice?wsdl".
fscache.INFO [2025-09-22 21:30:13.292][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:13.298][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/a2ed8f44d213d85be0d7e9a0448c78ad.content.
sched.DEBUG[2025-09-22 21:30:13.299][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
sched.DEBUG[2025-09-22 21:30:13.303][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 [2025-09-22 21:30:13.306][private$cache$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/sched.
fscache.DEBUG[2025-09-22 21:30:13.308][FUN] Found encoding ISO-8859-1 for file /home/biocbuild/.cache/R/sched/45b8073beb9f4a9f751edf98e80ca9dd.content.
sched.DEBUG[2025-09-22 21:30:13.309][self$getBiodb()$getRequestScheduler( ...] Content loaded from cache.
biodb.DEBUG[2025-09-22 21:30:13.314][private$loadEntries] Creating entries from ids [1]: "2571".
biodb.DEBUG[2025-09-22 21:30:13.316][conn$getEntryContent] Get ChEBI entry content(s) for 1 id(s)...
fscache.INFO [2025-09-22 21:30:13.317][cch$loadContents] Load 1 contents, from /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649.
fscache.DEBUG[2025-09-22 21:30:13.326][FUN] Found encoding UTF-8 for file /home/biocbuild/.cache/R/biodb/chebi-0c5076ac2a43d16dbce503a44b09f649/2571.xml.
biodb.DEBUG[2025-09-22 21:30:13.328][conn$getEntryContent] 1 ChEBI entry content(s) loaded from cache.
biodb.DEBUG[2025-09-22 21:30:13.330][self$createEntryFromContent] Creating ChEBI entries from 1 content(s).
biodb.DEBUG[2025-09-22 21:30:13.332][self$createEntryFromContent] Parsing 1 ChEBI entries.
biodb.DEBUG[2025-09-22 21:30:13.334][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-09-22 21:30:13.335][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:13.337][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:13.342][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:13.343][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:13.344][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:13.345][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-09-22 21:30:13.349][ef$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:13.350][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:13.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.352][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.354][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:13.355][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:13.356][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.357][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.358][ef$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:13.359][ef$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:13.360][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.361][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.363][self$getBiodb()$getEntryFields()$get] Asked field names are: charge.
biodb.TRACE[2025-09-22 21:30:13.364][self$getBiodb()$getEntryFields()$get] Realnames of fields are: charge.
biodb.TRACE[2025-09-22 21:30:13.365][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.366][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.367][ef$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:13.368][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:13.370][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.370][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.372][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-09-22 21:30:13.373][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-09-22 21:30:13.374][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.375][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.376][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-09-22 21:30:13.377][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-09-22 21:30:13.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.379][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.381][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-09-22 21:30:13.382][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-09-22 21:30:13.383][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.384][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.386][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:13.387][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:13.388][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.389][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.390][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:13.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-09-22 21:30:13.392][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.393][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.394][ef$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:13.396][ef$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:13.397][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.398][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.400][self$getBiodb()$getEntryFields()$get] Asked field names are: mass.
biodb.TRACE[2025-09-22 21:30:13.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: molecular.mass.
biodb.TRACE[2025-09-22 21:30:13.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.404][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:13.405][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:13.406][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.407][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.409][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:13.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-09-22 21:30:13.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.413][ef$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:13.414][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:13.415][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.416][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.418][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-09-22 21:30:13.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-09-22 21:30:13.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.422][ef$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:13.423][ef$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:13.424][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.425][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.427][self$getBiodb()$getEntryFields()$get] Asked field names are: n_stars.
biodb.TRACE[2025-09-22 21:30:13.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: n.stars.
biodb.TRACE[2025-09-22 21:30:13.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.431][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:13.432][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:13.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.434][ef$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.436][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-09-22 21:30:13.437][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-09-22 21:30:13.438][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.439][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.440][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:13.442][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:13.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.448][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:13.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:13.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.460][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:13.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:13.463][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.470][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-09-22 21:30:13.471][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-09-22 21:30:13.474][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.476][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:13.478][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:13.479][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.480][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.481][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:13.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:13.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.485][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:13.486][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:13.487][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.488][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.490][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:13.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:13.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.495][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:13.496][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:13.497][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.498][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-09-22 21:30:13.500][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-09-22 21:30:13.501][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-09-22 21:30:13.502][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-09-22 21:30:13.503][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-09-22 21:30:13.508][self$createEntryFromContent] Accession numbers: 2571.
biodb.INFO [2025-09-22 21:30:13.513][biodb$terminate] Closing BiodbMain instance...
biodb.INFO [2025-09-22 21:30:13.516][self$deleteConn] Connector "chebi" deleted.
biodb.DEBUG[2025-09-22 21:30:13.517][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-09-22 21:30:13.518][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-09-22 21:30:13.523][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-09-22 21:30:13.524][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-09-22 21:30:13.525][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-09-22 21:30:13.528][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-09-22 21:30:13.529][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 2 | WARN 0 | SKIP 0 | PASS 355 ]

══ Failed tests ════════════════════════════════════════════════════════════════
── Failure ('test_100_generic.R:16:1'): The entry page URL can be downloaded. ──
!is.na(content) is not TRUE

`actual`:   FALSE
`expected`: TRUE 
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_true(!is.na(content))
── Failure ('test_100_generic.R:16:1'): The entry page URL can be downloaded. ──
nchar(content) > 0 is not TRUE

`actual`:   <NA>
`expected`: TRUE
Backtrace:
    ▆
 1. ├─base::do.call(fct, params)
 2. └─biodb (local) `<fn>`(conn = `<ChebiCnn>`, opt = `<named list>`)
 3.   └─testthat::expect_true(nchar(content) > 0)

[ FAIL 2 | WARN 0 | SKIP 0 | PASS 355 ]
Error: Test failures
Execution halted

Example timings

biodbChebi.Rcheck/biodbChebi-Ex.timings

nameusersystemelapsed
ChebiConn0.9330.1511.306
ChebiEntry0.1710.0020.175