Back to Multiple platform build/check report for BioC 3.20:   simplified   long
A[B]CDEFGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2025-01-23 12:06 -0500 (Thu, 23 Jan 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.1 LTS)x86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4746
palomino8Windows Server 2022 Datacenterx644.4.2 (2024-10-31 ucrt) -- "Pile of Leaves" 4493
merida1macOS 12.7.5 Montereyx86_644.4.2 (2024-10-31) -- "Pile of Leaves" 4517
kjohnson1macOS 13.6.6 Venturaarm644.4.2 (2024-10-31) -- "Pile of Leaves" 4469
taishanLinux (openEuler 24.03 LTS)aarch644.4.2 (2024-10-31) -- "Pile of Leaves" 4394
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 204/2289HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
biodbHmdb 1.12.0  (landing page)
Pierrick Roger
Snapshot Date: 2025-01-20 13:00 -0500 (Mon, 20 Jan 2025)
git_url: https://git.bioconductor.org/packages/biodbHmdb
git_branch: RELEASE_3_20
git_last_commit: 0eb718c
git_last_commit_date: 2024-10-29 11:06:39 -0500 (Tue, 29 Oct 2024)
nebbiolo2Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino8Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
merida1macOS 12.7.5 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.6 Ventura / arm64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    OK    WARNINGS  

CHECK results for biodbHmdb on palomino8

To the developers/maintainers of the biodbHmdb package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/biodbHmdb.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: biodbHmdb
Version: 1.12.0
Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbHmdb.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings biodbHmdb_1.12.0.tar.gz
StartedAt: 2025-01-20 23:21:24 -0500 (Mon, 20 Jan 2025)
EndedAt: 2025-01-20 23:22:43 -0500 (Mon, 20 Jan 2025)
EllapsedTime: 78.6 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: biodbHmdb.Rcheck
Warnings: 2

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:biodbHmdb.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings biodbHmdb_1.12.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck'
* using R version 4.4.2 (2024-10-31 ucrt)
* using platform: x86_64-w64-mingw32
* R was compiled by
    gcc.exe (GCC) 13.3.0
    GNU Fortran (GCC) 13.3.0
* running under: Windows Server 2022 x64 (build 20348)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'biodbHmdb/DESCRIPTION' ... OK
* this is package 'biodbHmdb' version '1.12.0'
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'biodbHmdb' can be installed ... WARNING
Found the following significant warnings:
  EntryMaker.hpp:23:21: warning: 'EntryMaker::accession_tag' will be initialized after [-Wreorder]
  EntryMaker.hpp:22:14: warning:   'bool EntryMaker::closed' [-Wreorder]
  EntryMaker.cpp:5:1: warning:   when initialized here [-Wreorder]
See 'F:/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck/00install.out' for details.
* used C++ compiler: 'G__~1.EXE (GCC) 13.3.0'
* 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 dependencies in R code ... NOTE
Namespace in Imports field not imported from: 'zip'
  All declared Imports should be used.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... OK
* checking for missing documentation entries ... WARNING
Undocumented code objects:
  'HmdbMetabolitesConn' 'HmdbMetabolitesEntry' 'hmdbToSqlite'
All user-level objects in a package should have documentation entries.
See chapter 'Writing R documentation files' in the 'Writing R
Extensions' manual.
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking compiled code ... NOTE
Note: information on .o files for x64 is not available
File 'F:/biocbuild/bbs-3.20-bioc/R/library/biodbHmdb/libs/x64/biodbHmdb.dll':
  Found '_exit', possibly from '_exit' (C)
  Found 'abort', possibly from 'abort' (C), 'runtime' (Fortran)
  Found 'exit', possibly from 'exit' (C), 'stop' (Fortran)

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs nor [v]sprintf. The detected symbols are linked into
the code but might come from libraries and not actually be called.

See 'Writing portable packages' in the 'Writing R Extensions' manual.
* checking files in 'vignettes' ... OK
* checking examples ... NONE
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
  Running 'testthat.R'
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 2 WARNINGs, 2 NOTEs
See
  'F:/biocbuild/bbs-3.20-bioc/meat/biodbHmdb.Rcheck/00check.log'
for details.

Installation output

biodbHmdb.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL biodbHmdb
###
##############################################################################
##############################################################################


* installing to library 'F:/biocbuild/bbs-3.20-bioc/R/library'
* installing *source* package 'biodbHmdb' ...
** using staged installation
** libs
using C++ compiler: 'G__~1.EXE (GCC) 13.3.0'
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c EntryMaker.cpp -o EntryMaker.o
In file included from EntryMaker.cpp:1:
EntryMaker.hpp: In constructor 'EntryMaker::EntryMaker()':
EntryMaker.hpp:23:21: warning: 'EntryMaker::accession_tag' will be initialized after [-Wreorder]
   23 |         TagDetector accession_tag;
      |                     ^~~~~~~~~~~~~
EntryMaker.hpp:22:14: warning:   'bool EntryMaker::closed' [-Wreorder]
   22 |         bool closed;
      |              ^~~~~~
EntryMaker.cpp:5:1: warning:   when initialized here [-Wreorder]
    5 | EntryMaker::EntryMaker() :
      | ^~~~~~~~~~
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c FileEntryMaker.cpp -o FileEntryMaker.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c RcppExports.cpp -o RcppExports.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c StringEnrtryMaker.cpp -o StringEnrtryMaker.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c TagDetector.cpp -o TagDetector.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c XmlSplitter.cpp -o XmlSplitter.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c extractXmlEntries.cpp -o extractXmlEntries.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c test-100-TagDetector.cpp -o test-100-TagDetector.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c test-150-StringEntryMaker.cpp -o test-150-StringEntryMaker.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c test-200-XmlSplitter.cpp -o test-200-XmlSplitter.o
g++ -std=gnu++17  -I"F:/biocbuild/bbs-3.20-bioc/R/include" -DNDEBUG  -I'F:/biocbuild/bbs-3.20-bioc/R/library/Rcpp/include' -I'F:/biocbuild/bbs-3.20-bioc/R/library/testthat/include'   -I"C:/rtools44/x86_64-w64-mingw32.static.posix/include"     -O2 -Wall  -mfpmath=sse -msse2 -mstackrealign  -c test-runner.cpp -o test-runner.o
g++ -std=gnu++17 -shared -s -static-libgcc -o biodbHmdb.dll tmp.def EntryMaker.o FileEntryMaker.o RcppExports.o StringEnrtryMaker.o TagDetector.o XmlSplitter.o extractXmlEntries.o test-100-TagDetector.o test-150-StringEntryMaker.o test-200-XmlSplitter.o test-runner.o -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib/x64 -LC:/rtools44/x86_64-w64-mingw32.static.posix/lib -LF:/biocbuild/bbs-3.20-bioc/R/bin/x64 -lR
installing to F:/biocbuild/bbs-3.20-bioc/R/library/00LOCK-biodbHmdb/00new/biodbHmdb/libs/x64
** R
** inst
** byte-compile and prepare package for lazy loading
** help
No man pages found in package  'biodbHmdb' 
*** 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 (biodbHmdb)

Tests output

biodbHmdb.Rcheck/tests/testthat.Rout


R version 4.4.2 (2024-10-31 ucrt) -- "Pile of Leaves"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64

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(biodbHmdb)
> Sys.setenv(TESTTHAT_REPORTER="summary")
> Sys.setenv(BIODB_LOG_DST="console")
> test_check("biodbHmdb")
biodb.INFO [2025-01-20 23:22:24.118][biodb::testContext]
biodb.INFO [2025-01-20 23:22:24.121][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-20 23:22:24.122][biodb::testContext] Test context - Tests of independent functions
biodb.INFO [2025-01-20 23:22:24.124][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-20 23:22:24.125][biodb::testContext]
biodb.INFO [2025-01-20 23:22:24.127][biodb::testThat]
biodb.INFO [2025-01-20 23:22:24.128][biodb::testThat] Running test function  test_extractXmlEntries  (" extractXmlEntries() works fine. ").
biodb.INFO [2025-01-20 23:22:24.129][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-20 23:22:24.130][biodb::testThat]
biodb.INFO [2025-01-20 23:22:24.271][biodb::testContext]
biodb.INFO [2025-01-20 23:22:24.272][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-20 23:22:24.273][biodb::testContext] Test context - Generic tests
biodb.INFO [2025-01-20 23:22:24.275][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-20 23:22:24.276][biodb::testContext]
biodb.INFO [2025-01-20 23:22:24.286][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-20 23:22:24.288][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-20 23:22:24.296][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-20 23:22:24.297][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-20 23:22:24.299][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-20 23:22:24.307][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.310][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.311][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-20 23:22:24.329][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-20 23:22:24.332][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.333][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.335][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.337][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-20 23:22:24.339][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-20 23:22:24.341][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.343][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.344][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.346][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-20 23:22:24.348][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-20 23:22:24.349][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-20 23:22:24.350][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.351][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.353][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.354][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-20 23:22:24.355][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-20 23:22:24.357][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-20 23:22:24.358][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.359][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.360][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.361][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-20 23:22:24.363][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-20 23:22:24.364][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.365][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.366][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.367][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-20 23:22:24.369][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-20 23:22:24.370][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-20 23:22:24.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.373][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.375][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-20 23:22:24.376][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-20 23:22:24.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.380][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.381][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-20 23:22:24.382][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-20 23:22:24.383][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-20 23:22:24.385][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.388][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-20 23:22:24.389][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-20 23:22:24.391][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-20 23:22:24.392][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-20 23:22:24.393][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-20 23:22:24.395][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-20 23:22:24.396][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.398][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.399][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-20 23:22:24.401][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-20 23:22:24.402][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.405][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.406][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-20 23:22:24.407][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-20 23:22:24.408][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.412][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-20 23:22:24.413][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-20 23:22:24.414][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.416][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.417][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.418][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-20 23:22:24.419][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-20 23:22:24.421][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.422][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.423][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.424][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-20 23:22:24.426][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-20 23:22:24.427][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.428][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.429][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.430][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-20 23:22:24.432][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-20 23:22:24.436][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-20 23:22:24.437][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.438][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.439][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.441][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-20 23:22:24.442][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-20 23:22:24.443][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-20 23:22:24.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.447][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.450][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-20 23:22:24.491][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:24.514][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-20 23:22:24.517][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:24.519][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-20 23:22:24.521][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:24.523][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-20 23:22:24.525][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:24.527][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-20 23:22:24.529][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-20 23:22:24.531][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-20 23:22:24.533][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:24.543][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-20 23:22:24.545][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-20 23:22:24.548][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:24.550][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:24.552][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-20 23:22:24.552][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-20 23:22:24.552][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-20 23:22:24.552][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-20 23:22:24.552][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-20 23:22:24.554][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-20 23:22:24.555][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:24.557][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:24.559][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-20 23:22:24.561][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:24.562][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:24.564][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-20 23:22:24.566][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:24.568][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-20 23:22:24.570][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-20 23:22:24.572][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:24.574][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:24.576][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-20 23:22:24.579][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:24.581][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-20 23:22:24.583][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:24.585][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-20 23:22:24.587][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:24.589][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-20 23:22:24.591][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:24.594][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-20 23:22:24.596][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-20 23:22:24.598][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-20 23:22:24.600][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:24.601][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-20 23:22:24.603][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-20 23:22:24.605][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:24.607][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:24.609][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-20 23:22:24.609][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-20 23:22:24.609][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-20 23:22:24.609][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-20 23:22:24.609][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-20 23:22:24.611][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-20 23:22:24.613][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:24.615][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:24.617][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-20 23:22:24.619][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:24.620][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:24.621][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-20 23:22:24.623][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:24.624][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-20 23:22:24.625][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-20 23:22:24.626][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:24.628][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:24.629][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-20 23:22:24.631][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:24.632][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-20 23:22:24.634][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:24.635][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-20 23:22:24.636][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:24.638][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-20 23:22:24.639][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:24.640][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-20 23:22:24.641][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-20 23:22:24.643][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-20 23:22:24.644][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:24.645][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-20 23:22:24.646][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-20 23:22:24.648][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:24.649][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:24.650][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:24.652][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-20 23:22:24.653][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:24.654][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:24.655][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-20 23:22:24.657][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:24.658][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:24.659][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-20 23:22:24.660][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:24.661][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-20 23:22:24.663][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-20 23:22:24.664][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:24.665][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:24.667][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-20 23:22:24.669][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:24.670][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-20 23:22:24.672][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:24.673][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-20 23:22:24.675][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:24.676][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-20 23:22:24.677][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:24.679][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-20 23:22:24.680][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-20 23:22:24.681][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-20 23:22:24.683][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:24.684][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-20 23:22:24.685][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-20 23:22:24.687][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:24.688][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:24.689][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:24.691][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-20 23:22:24.692][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:24.693][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:24.694][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-20 23:22:24.696][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:24.697][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:24.698][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-20 23:22:24.700][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:24.701][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-20 23:22:24.702][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-20 23:22:24.704][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:24.705][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:24.709][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-20 23:22:24.710][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.714][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:24.715][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:24.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.719][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.720][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:24.721][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:24.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.726][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:24.727][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:24.728][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.729][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.731][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:24.733][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:24.734][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.735][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[2025-01-20 23:22:24.736][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:24.739][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:24.740][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.741][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.742][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:24.745][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:24.746][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.747][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.748][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.749][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:24.750][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:24.752][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.753][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.754][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:24.756][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:24.757][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.759][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.760][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.761][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:24.762][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:24.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.764][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.766][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.767][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:24.768][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:24.769][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.773][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:24.774][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:24.775][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.776][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.777][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.778][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:24.779][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:24.781][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.782][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.783][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:24.785][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:24.786][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.788][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[2025-01-20 23:22:24.789][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.790][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:24.791][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:24.792][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.793][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.795][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.796][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:24.797][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:24.804][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.805][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.806][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.807][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:24.808][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:24.809][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.811][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.812][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:24.813][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:24.814][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:24.815][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:24.816][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:24.817][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-20 23:22:24.822][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-20 23:22:24.824][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-20 23:22:24.825][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-20 23:22:24.827][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-20 23:22:24.829][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-20 23:22:24.830][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-20 23:22:24.832][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-20 23:22:24.834][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-20 23:22:24.835][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-20 23:22:24.837][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-20 23:22:24.839][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-20 23:22:24.840][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-20 23:22:24.842][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-20 23:22:24.844][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-20 23:22:24.845][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-20 23:22:24.847][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-20 23:22:24.849][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-20 23:22:24.850][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-20 23:22:24.852][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-20 23:22:24.854][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-20 23:22:24.855][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-20 23:22:24.857][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-20 23:22:24.859][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-20 23:22:24.861][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-20 23:22:24.862][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-20 23:22:24.864][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-20 23:22:24.866][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-20 23:22:24.868][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-20 23:22:24.869][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-20 23:22:24.871][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-20 23:22:24.873][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-20 23:22:24.874][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-20 23:22:24.876][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-20 23:22:24.878][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-20 23:22:24.879][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-20 23:22:24.881][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-20 23:22:24.883][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-20 23:22:24.884][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-20 23:22:24.886][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-20 23:22:24.888][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-20 23:22:24.889][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-20 23:22:24.891][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-20 23:22:24.893][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-20 23:22:24.894][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-20 23:22:24.896][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-20 23:22:24.898][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-20 23:22:24.899][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-20 23:22:24.901][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-20 23:22:24.903][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-20 23:22:24.904][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-20 23:22:24.906][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-20 23:22:24.908][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-20 23:22:24.909][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-20 23:22:24.911][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-20 23:22:24.912][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-20 23:22:24.914][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-20 23:22:24.916][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-20 23:22:24.917][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-20 23:22:24.919][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-20 23:22:24.920][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-20 23:22:24.922][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-20 23:22:24.923][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-20 23:22:24.925][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-20 23:22:24.927][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-20 23:22:24.928][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-20 23:22:24.930][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-20 23:22:24.931][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-20 23:22:24.933][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-20 23:22:24.934][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-20 23:22:24.936][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-20 23:22:24.937][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-20 23:22:24.939][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-20 23:22:24.941][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-20 23:22:24.942][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-20 23:22:24.944][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-20 23:22:24.945][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-20 23:22:24.947][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-20 23:22:24.948][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-20 23:22:24.950][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-20 23:22:24.951][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-20 23:22:24.953][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-20 23:22:24.955][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-20 23:22:24.990][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-20 23:22:24.992][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-20 23:22:24.995][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-20 23:22:24.996][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:24.998][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:24.999][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:25.000][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:25.004][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:25.005][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:25.006][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:25.008][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:25.009][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:25.010][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:25.011][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[2025-01-20 23:22:25.012][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:25.013][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:25.014][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:25.016][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:25.017][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:25.018][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:25.019][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[2025-01-20 23:22:25.020][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:25.021][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:25.022][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:25.023][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:25.024][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:25.025][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:25.026][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[2025-01-20 23:22:25.028][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:25.029][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:25.030][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:25.032][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:25.066][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:25.068][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:25.069][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.DEBUG[2025-01-20 23:22:25.070][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:25.071][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:25.072][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:25.073][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:25.075][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:25.076][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:25.077][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:25.078][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:25.079][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:25.080][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:25.081][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:25.083][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:25.084][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:25.085][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:25.086][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:25.087][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:25.088][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:25.090][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:25.091][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:25.092][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:25.093][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:25.094][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:25.095][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:25.096][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:25.097][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:25.098][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:25.099][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:25.101][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:25.102][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:25.103][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:25.104][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:25.105][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:25.106][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:25.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:25.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:25.109][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:25.110][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:25.112][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:25.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:25.114][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:25.115][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:25.116][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:25.117][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:25.118][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:25.119][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:25.120][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:25.122][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:25.124][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:25.126][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.DEBUG[2025-01-20 23:22:25.128][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:25.129][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:25.131][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:25.133][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:25.135][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:25.137][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:25.138][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:25.140][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:25.142][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:25.144][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:25.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:25.147][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:25.149][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:25.151][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:25.152][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:25.154][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:25.156][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:25.157][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:25.159][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:25.161][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:25.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:25.164][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:25.166][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:25.168][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:25.169][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:25.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:25.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:25.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:25.176][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:25.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:25.179][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:25.181][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:25.183][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:25.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:25.186][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[2025-01-20 23:22:25.188][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:25.189][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:25.191][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:25.193][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:25.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:25.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:25.198][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:25.202][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-20 23:22:25.219][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-20 23:22:25.222][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:25.224][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-20 23:22:25.226][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:25.228][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-20 23:22:25.230][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:25.231][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-20 23:22:25.233][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:25.234][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-20 23:22:25.235][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-20 23:22:25.236][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-20 23:22:25.238][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:25.239][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-20 23:22:25.240][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-20 23:22:25.241][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-20 23:22:25.241][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-20 23:22:25.241][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-20 23:22:25.241][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-20 23:22:25.241][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-20 23:22:25.241][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-20 23:22:25.241][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-20 23:22:25.241][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-20 23:22:25.241][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-20 23:22:25.241][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-20 23:22:25.241][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-20 23:22:25.241][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-20 23:22:25.241][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-20 23:22:25.241][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-20 23:22:25.241][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-20 23:22:25.241][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-20 23:22:25.241][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-20 23:22:25.241][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-20 23:22:25.243][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:25.244][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-20 23:22:25.244][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-20 23:22:25.244][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-20 23:22:25.245][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-20 23:22:25.246][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:25.247][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:25.249][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-20 23:22:25.250][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:25.251][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:25.252][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-20 23:22:25.253][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-20 23:22:25.253][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-20 23:22:25.254][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-20 23:22:25.256][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-20 23:22:25.257][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:25.258][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:25.264][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-20 23:22:25.265][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-20 23:22:25.267][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-20 23:22:25.269][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-20 23:22:25.271][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-20 23:22:25.291][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-20 23:22:25.293][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-20 23:22:25.296][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-20 23:22:25.300][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-20 23:22:25.304][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-20 23:22:25.305][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-20 23:22:25.307][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-20 23:22:25.308][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-20 23:22:25.310][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-20 23:22:25.310][self$setPropertyValue] Setting property "urls" to "F:/biocbuild/bbs-3.20-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-20 23:22:25.311][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-20 23:22:25.312][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-20 23:22:25.320][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-20 23:22:25.321][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-20 23:22:25.323][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-20 23:22:25.338][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-20 23:22:25.340][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-20 23:22:25.341][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-20 23:22:25.343][private$addConnectorRules] Create new rule for URL "F:/biocbuild/bbs-3.20-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-20 23:22:25.344][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-20 23:22:25.345][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-20 23:22:25.355][biodb::testThat]
biodb.INFO [2025-01-20 23:22:25.357][biodb::testThat] Running test function  test.entry.fields  (" Entry fields have a correct value ").
biodb.INFO [2025-01-20 23:22:25.359][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-20 23:22:25.360][biodb::testThat]
biodb.TRACE[2025-01-20 23:22:25.373][loadFileContents] Loaded 1 files from cache: [1]: "F:/biocbuild/bbs-3.20-bioc/R/library/biodbHmdb/testref/entry-hmdb.metabolites-HMDB0000001-content.xml".
biodb.DEBUG[2025-01-20 23:22:25.375][biodb$getFactory()$createEntryFromCo ...] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-20 23:22:25.379][biodb$getFactory()$createEntryFromCo ...] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-20 23:22:25.386][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-20 23:22:25.387][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:25.388][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:25.407][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:25.409][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:25.410][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:25.411][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-20 23:22:25.591][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:25.593][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:25.594][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.595][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.597][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:25.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:25.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.611][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.613][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:25.614][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:25.615][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.616][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.639][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:25.641][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:25.642][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.643][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.645][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:25.646][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:25.647][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.648][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.650][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:25.651][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:25.652][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.654][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.655][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:25.656][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:25.657][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.659][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.660][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:25.662][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:25.663][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.664][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.665][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:25.667][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:25.668][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.669][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.671][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:25.672][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:25.673][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.674][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.676][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:25.677][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:25.686][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.687][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.689][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:25.690][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:25.691][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.692][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.694][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:25.695][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:25.696][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.697][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.699][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:25.700][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:25.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.702][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.704][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:25.705][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:25.706][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.707][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.709][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:25.710][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:25.711][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.714][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:25.715][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:25.716][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.718][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.719][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:25.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:25.722][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.723][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.724][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:25.726][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:25.727][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.728][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.730][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:25.731][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:25.732][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.733][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.735][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:25.736][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:25.737][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.738][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.740][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:25.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:25.742][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.743][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.745][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:25.746][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:25.748][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.750][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.752][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:25.754][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:25.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.758][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.760][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:25.762][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:25.764][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.766][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.768][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:25.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:25.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.774][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.776][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:25.778][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:25.780][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.782][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.784][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:25.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:25.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.792][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:25.794][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:25.796][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.798][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.800][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:25.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:25.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.806][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.808][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:25.810][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:25.812][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.814][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.816][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:25.818][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:25.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.824][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:25.826][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:25.828][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.830][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.832][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:25.834][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:25.836][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.838][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.840][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-20 23:22:25.842][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:25.844][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.846][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.849][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-20 23:22:25.851][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:25.852][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.857][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:25.859][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:25.861][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.862][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.864][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:25.866][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:25.868][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.872][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:25.874][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:25.876][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.878][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.939][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:25.941][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:25.943][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.945][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.947][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:25.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:25.951][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.953][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.955][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:25.957][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:25.959][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.963][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:25.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:25.966][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.970][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:25.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:25.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.978][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:25.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:25.981][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.982][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.984][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:25.985][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:25.986][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.987][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.989][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:25.990][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:25.991][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.992][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.993][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:25.995][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:25.996][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:25.997][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:25.998][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:26.000][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:26.001][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.002][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.003][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:26.005][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:26.006][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.007][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.008][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:26.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:26.011][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.012][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.014][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:26.015][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:26.016][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.017][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.019][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:26.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:26.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.024][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:26.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:26.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.027][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.029][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:26.030][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:26.031][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.032][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.033][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:26.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:26.036][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.037][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.038][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:26.040][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:26.041][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.042][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.044][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:26.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:26.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.049][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:26.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:26.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.054][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:26.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:26.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.060][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:26.061][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:26.062][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.064][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.065][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:26.066][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:26.068][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.069][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.070][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:26.071][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:26.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.075][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:26.076][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:26.077][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.079][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.080][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:26.081][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:26.082][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.083][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.085][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:26.086][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:26.087][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.088][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.090][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:26.091][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:26.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.095][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:26.096][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:26.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.099][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:26.101][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:26.102][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.104][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:26.106][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:26.107][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.108][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.109][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:26.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:26.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.118][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.119][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:26.120][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:26.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.123][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.124][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:26.125][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:26.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.129][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:26.130][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:26.131][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.134][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:26.135][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:26.136][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.137][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.139][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:26.140][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:26.141][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.142][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.144][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:26.145][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:26.146][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.148][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:26.150][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:26.151][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.154][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:26.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:26.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.157][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.158][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:26.160][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:26.161][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.162][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.163][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:26.165][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:26.166][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.167][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.168][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:26.170][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:26.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.172][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.173][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:26.174][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:26.176][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.177][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.178][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:26.179][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:26.180][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.182][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.183][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:26.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:26.185][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.187][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.188][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:26.189][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:26.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.193][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:26.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:26.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.198][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:26.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:26.200][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.201][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.203][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:26.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:26.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.207][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:26.209][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:26.210][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.212][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-20 23:22:26.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:26.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.217][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:26.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:26.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.221][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.222][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:26.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:26.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.227][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:26.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:26.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.231][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.232][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-20 23:22:26.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:26.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.236][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.252][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:26.254][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:26.255][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.256][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.258][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:26.259][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:26.260][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.261][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.263][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:26.264][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:26.265][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.266][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.267][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:26.269][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:26.270][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.271][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.272][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:26.274][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:26.275][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.276][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.277][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:26.279][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:26.280][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.286][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.287][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:26.288][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:26.290][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.291][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.292][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:26.293][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:26.294][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.295][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.297][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:26.298][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:26.299][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.300][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.302][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:26.303][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:26.304][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.305][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.306][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:26.308][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:26.309][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.310][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.311][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:26.313][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:26.314][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.315][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.317][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:26.318][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:26.319][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.320][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.321][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:26.323][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:26.324][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.325][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.326][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:26.328][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:26.329][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.330][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:26.331][biodb$getFactory()$createEntryFromCo ...] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-20 23:22:26.334][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-20 23:22:26.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-20 23:22:26.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.338][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.339][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-20 23:22:26.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-20 23:22:26.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.344][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-20 23:22:26.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-20 23:22:26.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.349][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-20 23:22:26.350][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-20 23:22:26.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.399][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:26.400][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:26.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.403][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.412][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:26.413][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:26.414][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.422][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:26.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:26.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.428][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:26.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:26.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.433][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:26.434][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:26.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.439][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:26.441][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:26.442][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.444][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.445][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:26.446][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:26.447][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.449][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.450][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:26.451][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:26.452][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.453][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.455][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:26.456][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:26.457][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.459][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.460][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:26.461][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:26.462][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.463][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.465][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:26.466][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:26.467][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.468][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.487][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:26.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:26.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.493][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:26.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:26.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:26.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:26.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.503][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:26.504][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:26.505][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.506][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:26.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:26.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.539][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:26.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:26.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.545][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:26.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:26.547][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.548][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.549][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:26.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:26.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.554][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:26.556][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:26.557][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.558][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.559][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:26.561][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:26.562][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.574][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:26.575][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:26.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.578][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.579][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:26.580][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:26.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.584][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:26.585][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:26.586][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.587][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.589][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:26.590][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:26.591][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.592][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.594][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:26.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:26.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.608][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:26.609][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:26.610][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.612][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.613][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:26.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:26.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.618][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:26.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:26.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.622][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:26.624][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:26.625][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.626][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.627][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:26.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:26.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.653][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:26.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:26.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.658][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:26.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:26.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.663][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:26.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:26.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.668][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:26.670][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:26.672][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.673][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.674][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:26.676][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:26.677][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.678][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.690][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:26.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:26.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.695][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:26.696][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:26.697][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.698][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.700][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:26.701][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:26.702][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.703][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.705][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:26.706][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:26.707][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.708][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.710][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:26.711][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:26.712][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.713][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.751][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:26.753][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:26.755][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.759][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:26.761][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:26.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.767][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:26.769][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:26.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.775][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:26.777][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:26.779][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.780][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.782][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:26.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:26.786][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.808][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:26.810][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:26.811][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.812][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.813][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:26.815][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:26.816][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.817][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.818][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:26.819][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:26.820][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.822][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.823][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:26.824][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:26.825][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.827][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.828][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:26.829][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:26.830][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.831][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.847][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:26.848][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:26.850][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.851][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.852][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:26.853][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:26.854][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.856][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.857][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:26.858][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:26.859][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.860][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.862][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:26.863][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:26.864][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.865][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.866][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:26.868][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:26.869][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.870][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.885][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:26.886][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:26.888][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.889][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.890][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:26.891][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:26.893][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.894][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.895][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:26.896][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:26.897][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.899][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.900][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:26.901][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:26.902][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.903][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.905][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:26.906][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:26.907][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.908][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.919][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:26.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:26.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.923][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.924][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:26.926][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:26.927][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.928][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.929][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:26.931][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:26.932][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.933][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.934][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:26.936][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:26.937][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.938][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.939][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:26.940][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:26.942][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.943][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.959][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:26.961][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:26.962][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.963][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.964][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:26.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:26.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.969][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:26.970][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:26.971][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.972][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.974][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:26.975][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:26.976][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.977][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:26.979][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:26.980][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:26.982][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:26.983][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.000][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:27.001][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:27.002][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.005][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:27.006][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:27.007][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.008][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.010][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:27.011][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:27.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.016][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:27.018][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:27.019][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.021][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.023][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:27.025][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:27.026][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.042][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:27.044][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:27.045][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.046][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.048][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:27.049][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:27.050][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.051][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.052][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:27.054][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:27.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.057][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:27.059][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:27.060][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.061][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.062][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:27.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:27.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.066][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.077][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:27.078][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:27.080][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.081][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.082][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:27.083][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:27.084][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.086][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.087][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:27.088][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:27.089][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.090][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.092][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:27.093][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:27.094][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.095][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.097][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:27.098][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:27.099][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.100][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.111][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:27.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:27.114][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.116][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:27.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:27.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.120][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.121][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:27.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:27.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.126][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:27.127][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:27.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.129][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.131][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:27.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:27.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.156][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:27.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:27.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.162][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:27.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:27.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.166][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:27.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:27.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.171][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:27.173][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:27.174][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.175][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.176][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:27.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:27.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.195][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:27.197][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:27.198][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.201][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:27.202][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:27.203][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.204][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.205][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:27.207][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:27.208][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.209][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.210][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:27.211][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:27.213][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.214][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.215][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:27.216][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:27.217][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.219][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.236][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:27.237][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:27.238][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.239][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.246][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:27.247][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:27.249][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.250][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.364][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:27.366][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:27.367][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.368][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.375][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:27.377][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:27.378][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.379][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.391][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:27.393][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:27.395][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.396][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.407][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:27.409][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:27.411][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.413][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.430][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:27.431][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:27.433][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.434][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.440][ef$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:27.442][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:27.443][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.444][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.455][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:27.457][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:27.458][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.459][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.473][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:27.475][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:27.476][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.477][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.484][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:27.485][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:27.486][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.488][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.494][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:27.495][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:27.497][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.498][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.509][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:27.511][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:27.513][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.514][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.521][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:27.522][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:27.524][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.525][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.531][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:27.533][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:27.534][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.535][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.542][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:27.543][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:27.545][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.546][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.556][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:27.557][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:27.559][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.560][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.567][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:27.569][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:27.570][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.572][ef$get] fields variable is a list.
biodb.INFO [2025-01-20 23:22:27.584][biodb::testThat]
biodb.INFO [2025-01-20 23:22:27.586][biodb::testThat] Running test function  test.rt.unit  (" RT unit is defined when there is an RT value. ").
biodb.INFO [2025-01-20 23:22:27.587][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-20 23:22:27.588][biodb::testThat]
biodb.DEBUG[2025-01-20 23:22:27.605][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-01-20 23:22:27.612][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-20 23:22:27.812][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:27.815][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-20 23:22:27.818][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-01-20 23:22:27.820][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-20 23:22:27.837][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-01-20 23:22:27.839][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-20 23:22:27.862][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-20 23:22:27.864][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-20 23:22:27.866][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-20 23:22:27.867][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:27.869][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:27.887][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:27.888][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:27.889][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:27.891][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-20 23:22:27.896][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:27.897][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:27.899][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.900][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.902][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:27.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:27.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.906][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.907][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:27.909][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:27.910][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.911][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.919][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:27.921][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:27.922][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.924][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.925][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:27.927][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:27.928][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.929][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.931][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:27.932][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:27.933][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.935][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.937][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:27.938][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:27.939][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.940][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.942][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:27.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:27.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.947][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:27.949][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:27.950][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.951][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.953][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:27.955][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:27.956][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.957][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.958][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:27.960][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:27.961][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.962][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.964][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:27.965][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:27.967][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.968][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.969][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:27.971][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:27.972][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.973][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.975][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:27.976][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:27.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.980][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:27.982][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:27.983][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.984][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.986][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:27.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:27.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.991][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:27.993][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:27.994][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:27.995][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:27.997][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:27.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:27.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.001][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.002][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:28.003][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:28.005][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.006][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.008][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:28.009][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:28.010][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.011][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.013][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:28.014][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:28.016][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.017][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.018][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:28.020][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:28.021][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.022][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.024][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:28.025][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:28.026][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.027][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.029][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:28.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:28.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.035][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:28.036][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:28.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.039][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.040][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:28.042][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:28.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.044][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.046][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:28.047][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:28.048][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.049][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.051][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:28.053][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:28.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.057][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:28.058][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:28.059][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.061][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.063][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:28.064][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:28.065][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.068][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:28.069][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:28.070][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.072][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.073][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:28.074][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:28.075][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.078][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:28.079][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:28.081][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.082][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.083][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:28.085][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:28.086][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.088][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-20 23:22:28.090][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:28.091][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.092][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.094][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-20 23:22:28.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:28.096][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.097][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.104][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:28.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:28.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.108][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:28.110][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:28.111][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.112][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.113][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:28.115][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:28.116][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.117][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.118][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:28.119][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:28.121][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.122][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.123][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:28.124][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:28.126][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.127][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.128][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:28.129][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:28.130][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.132][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.133][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:28.134][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:28.135][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.136][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.138][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:28.139][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:28.140][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.141][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.143][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:28.144][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:28.145][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.147][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.148][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:28.149][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:28.150][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.152][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.153][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:28.155][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:28.157][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.159][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.160][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:28.162][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:28.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.164][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.165][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:28.167][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:28.168][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.169][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.170][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:28.172][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:28.173][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.175][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:28.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:28.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.180][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:28.181][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:28.183][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.184][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.186][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:28.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:28.190][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.191][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.193][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:28.195][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:28.197][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.199][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.201][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:28.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:28.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.207][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.209][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:28.211][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:28.213][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.214][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.216][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:28.219][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:28.220][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.222][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.224][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:28.226][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:28.228][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.229][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.230][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:28.232][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:28.233][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.234][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.235][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:28.236][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:28.238][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.239][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.240][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:28.241][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:28.242][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.244][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.245][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:28.246][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:28.247][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.249][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.250][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:28.251][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:28.252][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.253][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.255][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:28.256][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:28.257][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.258][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.259][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:28.261][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:28.262][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.263][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.264][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:28.265][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:28.267][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.268][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.269][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:28.270][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:28.272][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.273][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.274][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:28.275][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:28.277][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.278][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.279][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:28.280][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:28.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.284][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:28.285][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:28.291][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.294][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:28.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:28.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.299][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:28.300][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:28.301][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.302][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.304][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:28.305][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:28.306][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.309][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:28.310][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:28.311][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.312][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.313][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:28.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:28.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.318][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:28.320][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:28.321][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.322][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.323][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:28.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:28.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.328][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:28.330][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:28.331][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.332][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.333][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:28.334][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:28.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.338][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:28.339][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:28.340][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.342][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.343][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:28.344][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:28.345][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.347][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.348][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:28.349][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:28.350][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.351][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.353][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:28.354][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:28.355][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.356][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.358][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:28.360][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:28.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.364][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.366][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:28.368][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:28.370][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.372][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.374][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:28.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:28.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.379][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.381][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:28.383][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:28.385][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.389][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:28.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:28.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.395][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.397][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:28.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:28.401][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.403][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:28.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:28.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.408][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-20 23:22:28.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:28.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.413][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:28.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:28.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.418][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:28.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:28.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.422][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.423][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:28.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:28.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.428][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-20 23:22:28.429][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:28.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.434][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:28.435][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:28.436][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.437][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.438][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:28.440][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:28.441][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.442][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.443][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:28.445][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:28.446][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.447][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.448][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:28.449][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:28.451][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.452][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.453][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:28.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:28.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.457][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.458][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:28.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:28.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.462][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.463][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:28.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:28.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.468][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:28.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:28.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.478][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:28.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:28.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.483][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:28.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:28.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.486][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.488][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:28.489][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:28.490][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.491][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.492][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:28.494][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:28.495][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.496][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.497][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:28.499][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:28.500][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.501][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.502][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:28.503][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:28.505][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.506][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.507][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:28.508][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:28.510][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.511][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:28.512][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-20 23:22:28.513][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.
biodb.TRACE[2025-01-20 23:22:28.515][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.
biodb.TRACE[2025-01-20 23:22:28.516][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.517][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.518][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.min.
biodb.TRACE[2025-01-20 23:22:28.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.min.
biodb.TRACE[2025-01-20 23:22:28.521][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.522][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chrom.rt.max.
biodb.TRACE[2025-01-20 23:22:28.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chrom.rt.max.
biodb.TRACE[2025-01-20 23:22:28.526][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.527][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-20 23:22:28.550][biodb::testThat]
biodb.INFO [2025-01-20 23:22:28.552][biodb::testThat] Running test function  test.searchForEntries  (" We can search for an entry by searchable field ").
biodb.INFO [2025-01-20 23:22:28.553][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-20 23:22:28.554][biodb::testThat]
biodb.TRACE[2025-01-20 23:22:28.558][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:28.559][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:28.560][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.562][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:28.563][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "name".
biodb.TRACE[2025-01-20 23:22:28.595][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:28.597][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:28.598][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.599][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.601][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:28.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:28.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.606][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:28.607][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:28.608][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.609][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:28.614][function(conn, opt)] With value "1-Methylhistidine".
biodb.DEBUG[2025-01-20 23:22:28.615][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-01-20 23:22:28.616][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-20 23:22:28.618][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-20 23:22:28.620][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:28.622][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:28.624][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-20 23:22:28.625][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:28.627][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-20 23:22:28.628][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-20 23:22:28.630][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-20 23:22:28.631][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-20 23:22:28.632][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-20 23:22:28.634][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-20 23:22:28.635][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-20 23:22:28.637][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:28.638][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:28.640][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.641][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.643][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:28.644][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:28.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.648][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:28.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:28.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:28.653][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:28.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:28.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:28.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:28.658][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-20 23:22:28.664][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-20 23:22:28.666][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-01-20 23:22:28.999][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:29.001][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:29.002][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.003][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:29.005][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "description".
biodb.TRACE[2025-01-20 23:22:29.044][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:29.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:29.046][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.049][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:29.050][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:29.051][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.053][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.054][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:29.055][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:29.056][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:29.062][function(conn, opt)] With value "1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.".
biodb.DEBUG[2025-01-20 23:22:29.108][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-20 23:22:29.109][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-01-20 23:22:29.111][private$doSearchForEntries] fields VALUES = 1-Methylhistidine, also known as 1-MHis, belongs to the class of organic compounds known as histidine and derivatives. Histidine and derivatives are compounds containing cysteine or a derivative thereof resulting from a reaction of cysteine at the amino group or the carboxy group, or from the replacement of any hydrogen of glycine by a heteroatom. 1-Methylhistidine is derived mainly from the anserine of dietary flesh sources, especially poultry. The enzyme, carnosinase, splits anserine into beta-alanine and 1-MHis. High levels of 1-MHis tend to inhibit the enzyme carnosinase and increase anserine levels. Conversely, genetic variants with deficient carnosinase activity in plasma show increased 1-MHis excretions when they consume a high meat diet. Reduced serum carnosinase activity is also found in patients with Parkinson's disease and multiple sclerosis and patients following a cerebrovascular accident. Vitamin E deficiency can lead to 1-methylhistidinuria from increased oxidative effects in skeletal muscle. 1-Methylhistidine is a biomarker for the consumption of meat, especially red meat.
biodb.DEBUG[2025-01-20 23:22:29.123][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:29.125][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:29.127][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-20 23:22:29.134][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:29.136][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-20 23:22:29.150][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-20 23:22:29.151][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-20 23:22:29.153][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-20 23:22:29.154][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-20 23:22:29.155][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-20 23:22:29.156][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-20 23:22:29.159][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:29.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:29.162][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.163][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.165][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:29.166][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:29.167][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.168][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.170][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:29.171][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:29.172][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.174][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.175][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:29.176][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:29.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.179][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:29.180][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-20 23:22:29.181][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-20 23:22:29.182][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.TRACE[2025-01-20 23:22:29.205][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:29.207][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:29.208][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.209][ef$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:29.211][function(conn, opt)] Testing searchForEntries() with entry "HMDB0000001" and field "secondary.accessions".
biodb.TRACE[2025-01-20 23:22:29.239][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:29.240][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:29.241][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.243][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.244][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:29.245][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:29.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.248][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.249][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:29.250][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:29.251][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.252][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:29.256][function(conn, opt)] With value "HMDB00001".
biodb.DEBUG[2025-01-20 23:22:29.258][private$doSearchForEntries] fields NAMES = secondary.accessions
biodb.DEBUG[2025-01-20 23:22:29.259][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-01-20 23:22:29.260][private$doSearchForEntries] fields VALUES = HMDB00001
biodb.DEBUG[2025-01-20 23:22:29.262][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:29.264][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:29.266][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-20 23:22:29.268][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:29.269][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-20 23:22:29.271][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-20 23:22:29.272][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-20 23:22:29.273][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-20 23:22:29.275][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-20 23:22:29.276][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-20 23:22:29.277][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-20 23:22:29.279][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:29.281][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:29.282][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.283][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.284][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:29.286][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:29.287][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.288][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.289][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:29.291][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:29.292][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.293][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.294][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:29.295][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:29.297][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.298][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:29.299][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-20 23:22:29.300][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-20 23:22:29.301][function(conn, opt)] With found IDs [1]: "HMDB0000001".
biodb.INFO [2025-01-20 23:22:29.363][biodb::testThat]
biodb.INFO [2025-01-20 23:22:29.365][biodb::testThat] Running test function  test.searchByName  (" We can search for an entry by name. ").
biodb.INFO [2025-01-20 23:22:29.366][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-20 23:22:29.367][biodb::testThat]
biodb.TRACE[2025-01-20 23:22:29.403][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:29.405][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:29.406][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.407][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.409][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:29.410][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:29.411][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.412][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.414][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:29.415][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:29.416][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.417][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:29.431][private$doSearchForEntries] fields NAMES = name
biodb.DEBUG[2025-01-20 23:22:29.432][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-20 23:22:29.433][private$doSearchForEntries] fields VALUES = 1-Methylhistidine
biodb.DEBUG[2025-01-20 23:22:29.436][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:29.438][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:29.440][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-20 23:22:29.441][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:29.443][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-20 23:22:29.444][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-20 23:22:29.446][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-20 23:22:29.447][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-20 23:22:29.448][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-20 23:22:29.449][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-20 23:22:29.451][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-20 23:22:29.453][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:29.454][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:29.455][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.456][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.458][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:29.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:29.460][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.461][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.463][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:29.464][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:29.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.466][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.468][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:29.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:29.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.471][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:29.473][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-20 23:22:29.474][private$doSearchForEntries] COUNT IDS = 1
biodb.INFO [2025-01-20 23:22:29.519][biodb::testThat]
biodb.INFO [2025-01-20 23:22:29.520][biodb::testThat] Running test function  testEntryLoading  (" We can load an entry from the database. ").
biodb.INFO [2025-01-20 23:22:29.522][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-20 23:22:29.523][biodb::testThat]
biodb.TRACE[2025-01-20 23:22:29.548][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-20 23:22:29.550][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-20 23:22:29.551][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.554][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-20 23:22:29.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-20 23:22:29.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.558][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.559][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-20 23:22:29.560][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-20 23:22:29.561][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.563][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.564][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-20 23:22:29.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-20 23:22:29.567][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.568][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.612][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-20 23:22:29.614][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-20 23:22:29.615][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.616][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.618][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mz.
biodb.TRACE[2025-01-20 23:22:29.619][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mz.
biodb.TRACE[2025-01-20 23:22:29.620][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.621][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.623][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mzexp.
biodb.TRACE[2025-01-20 23:22:29.624][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mzexp.
biodb.TRACE[2025-01-20 23:22:29.625][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.626][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:29.628][self$getBiodb()$getEntryFields()$get] Asked field names are: peak.mztheo.
biodb.TRACE[2025-01-20 23:22:29.629][self$getBiodb()$getEntryFields()$get] Realnames of fields are: peak.mztheo.
biodb.TRACE[2025-01-20 23:22:29.630][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:29.631][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-20 23:22:29.641][biodb::testThat]
biodb.INFO [2025-01-20 23:22:29.643][biodb::testThat] Running test function  test.entry.page.url  (" We can get a URL pointing to the entry page. ").
biodb.INFO [2025-01-20 23:22:29.644][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-20 23:22:29.645][biodb::testThat]
biodb.INFO [2025-01-20 23:22:29.660][biodb::testThat]
biodb.INFO [2025-01-20 23:22:29.662][biodb::testThat] Running test function  test.entry.image.url  (" We can get a URL pointing to the entry image. ").
biodb.INFO [2025-01-20 23:22:29.663][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-20 23:22:29.664][biodb::testThat]
biodb.INFO [2025-01-20 23:22:29.686][biodb::testThat]
biodb.INFO [2025-01-20 23:22:29.687][biodb::testThat] Running test function  test.entry.page.url.download  (" The entry page URL can be downloaded. ").
biodb.INFO [2025-01-20 23:22:29.689][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-20 23:22:29.690][biodb::testThat]
biodb.DEBUG[2025-01-20 23:22:29.695][function(conn, opt)] Trying to download "http://www.hmdb.ca/metabolites/HMDB0000001".
biodb.DEBUG[2025-01-20 23:22:30.641][getUrlContent] Use base::url() for downloading content of URL http://www.hmdb.ca/metabolites/HMDB0000001.
biodb.INFO [2025-01-20 23:22:32.085][biodb::testThat]
biodb.INFO [2025-01-20 23:22:32.087][biodb::testThat] Running test function  test.entry.image.url.download  (" The entry image URL can be downloaded. ").
biodb.INFO [2025-01-20 23:22:32.088][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-20 23:22:32.089][biodb::testThat]
biodb.DEBUG[2025-01-20 23:22:32.255][getUrlContent] Use base::url() for downloading content of URL http://www.hmdb.ca/structures/HMDB0000001/image.png.
biodb.TRACE[2025-01-20 23:22:32.462][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:32.463][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:32.464][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:32.466][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:32.467][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:32.468][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:32.469][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:32.471][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:32.472][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:32.473][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:32.474][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:32.475][ef$get] fields variable is a list.
biodb.INFO [2025-01-20 23:22:32.478][biodb::testThat]
biodb.INFO [2025-01-20 23:22:32.479][biodb::testThat] Running test function  test.wrong.entry  (" Wrong entry gives NULL ").
biodb.INFO [2025-01-20 23:22:32.480][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-20 23:22:32.481][biodb::testThat]
biodb.DEBUG[2025-01-20 23:22:32.484][private$loadEntries] Creating entries from ids [1]: "WRONGA".
biodb.DEBUG[2025-01-20 23:22:32.536][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-20 23:22:32.539][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:32.541][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-20 23:22:32.556][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGA".
biodb.TRACE[2025-01-20 23:22:32.558][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-20 23:22:32.559][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-20 23:22:32.561][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-20 23:22:32.563][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:32.564][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-20 23:22:32.566][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-20 23:22:32.568][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-20 23:22:32.569][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:32.570][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:32.583][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:32.584][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:32.585][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:32.586][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-20 23:22:32.588][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:32.590][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:32.591][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:32.592][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:32.593][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:32.595][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:32.596][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:32.597][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:32.598][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:32.600][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:32.601][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:32.602][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:32.642][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:32.643][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:32.645][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:32.646][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:32.648][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:32.649][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:32.650][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:32.651][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:32.653][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:32.654][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:32.655][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:32.656][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:32.657][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:32.659][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:32.660][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:32.661][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:32.662][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:32.664][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:32.665][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:32.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:32.668][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-01-20 23:22:32.669][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.INFO [2025-01-20 23:22:32.715][biodb::testThat]
biodb.INFO [2025-01-20 23:22:32.717][biodb::testThat] Running test function  test.wrong.entry.among.good.ones  (" One wrong entry does not block the retrieval of good ones ").
biodb.INFO [2025-01-20 23:22:32.718][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-20 23:22:32.719][biodb::testThat]
biodb.DEBUG[2025-01-20 23:22:32.728][function(conn, opt)] IDS: [2]: "WRONGB, HMDB0000001"
biodb.DEBUG[2025-01-20 23:22:32.730][private$loadEntries] Creating entries from ids [1]: "WRONGB".
biodb.DEBUG[2025-01-20 23:22:32.731][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-20 23:22:32.733][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:32.735][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-20 23:22:32.738][cch$loadFileContent] Trying to load 1 files from cache: [1]: "WRONGB".
biodb.TRACE[2025-01-20 23:22:32.739][cch$loadFileContent] file.exist = [1]: "FALSE".
biodb.TRACE[2025-01-20 23:22:32.741][loadFileContents] Loaded 0 files from cache: none.
biodb.DEBUG[2025-01-20 23:22:32.742][conn$getEntryContent] 0 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-20 23:22:32.744][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:32.745][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-20 23:22:32.747][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-20 23:22:32.749][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-20 23:22:32.750][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:32.751][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:32.759][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:32.760][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:32.761][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:32.763][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-20 23:22:32.765][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:32.766][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:32.767][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:32.768][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:32.770][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:32.771][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:32.772][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:32.773][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:32.775][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:32.776][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:32.777][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:32.778][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:32.780][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:32.781][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:32.782][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:32.783][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:32.785][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:32.786][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:32.787][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:32.788][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:32.790][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:32.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:32.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:32.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:32.795][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:32.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:32.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:32.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:32.800][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:32.801][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:32.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:32.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:32.805][self$createEntryFromContent] Accession numbers: NA.
biodb.DEBUG[2025-01-20 23:22:32.811][self$createEntryFromContent] Found 1 entry/ies without an accession number. Set it/them to NULL.
biodb.DEBUG[2025-01-20 23:22:32.813][function(conn, opt)] Entries: [2]: "NULL, <environment>"
biodb.INFO [2025-01-20 23:22:32.896][biodb::testThat]
biodb.INFO [2025-01-20 23:22:32.897][biodb::testThat] Running test function  test.peak.table  (" The peak table is correct. ").
biodb.INFO [2025-01-20 23:22:32.898][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-20 23:22:32.900][biodb::testThat]
biodb.INFO [2025-01-20 23:22:32.949][biodb::testThat]
biodb.INFO [2025-01-20 23:22:32.951][biodb::testThat] Running test function  test.nb.entries  (" Nb entries is positive. ").
biodb.INFO [2025-01-20 23:22:32.952][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-20 23:22:32.953][biodb::testThat]
biodb.DEBUG[2025-01-20 23:22:32.956][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:32.958][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:32.960][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-20 23:22:32.962][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:32.963][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-20 23:22:32.965][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-20 23:22:32.966][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-20 23:22:32.967][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-20 23:22:32.969][private$doGetEntryIds] COUNT IDS = 2
biodb.INFO [2025-01-20 23:22:33.002][biodb::testThat]
biodb.INFO [2025-01-20 23:22:33.003][biodb::testThat] Running test function  test.entry.ids  (" We can get a list of entry ids. ").
biodb.INFO [2025-01-20 23:22:33.004][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-20 23:22:33.006][biodb::testThat]
biodb.DEBUG[2025-01-20 23:22:33.009][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:33.011][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:33.013][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-20 23:22:33.016][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:33.017][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-20 23:22:33.018][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-20 23:22:33.020][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-20 23:22:33.021][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-20 23:22:33.022][private$doGetEntryIds] COUNT IDS = 2
biodb.TRACE[2025-01-20 23:22:33.035][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:33.036][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:33.037][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:33.038][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:33.040][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:33.041][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:33.042][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:33.043][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:33.044][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:33.046][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:33.047][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:33.048][ef$get] fields variable is a list.
biodb.INFO [2025-01-20 23:22:33.049][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-20 23:22:33.051][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-20 23:22:33.058][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-20 23:22:33.060][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-20 23:22:33.061][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:33.062][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:33.068][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.070][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.071][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.072][FUN] Functions in observer BiodbConfig: [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 [2025-01-20 23:22:33.077][biodb::testContext]
biodb.INFO [2025-01-20 23:22:33.079][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-20 23:22:33.080][biodb::testContext] Test context - Test retrieval of entries
biodb.INFO [2025-01-20 23:22:33.081][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-20 23:22:33.082][biodb::testContext]
biodb.INFO [2025-01-20 23:22:33.089][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-20 23:22:33.091][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-20 23:22:33.096][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-20 23:22:33.098][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-20 23:22:33.099][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-20 23:22:33.100][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.101][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.102][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.103][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-20 23:22:33.105][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-20 23:22:33.106][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.107][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.108][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.109][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-20 23:22:33.110][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-20 23:22:33.112][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.113][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.114][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.115][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-20 23:22:33.116][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-20 23:22:33.117][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-20 23:22:33.118][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.119][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.121][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.122][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-20 23:22:33.123][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-20 23:22:33.124][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-20 23:22:33.125][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.126][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.127][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.129][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-20 23:22:33.130][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-20 23:22:33.131][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.132][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.133][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.134][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-20 23:22:33.136][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-20 23:22:33.137][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-20 23:22:33.138][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.139][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.140][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.141][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-20 23:22:33.142][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-20 23:22:33.144][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.145][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.146][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[2025-01-20 23:22:33.147][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-20 23:22:33.148][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-20 23:22:33.149][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-20 23:22:33.150][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.152][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.153][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.154][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-20 23:22:33.155][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-20 23:22:33.156][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-20 23:22:33.157][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-20 23:22:33.159][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-20 23:22:33.160][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-20 23:22:33.161][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.162][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.163][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.164][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-20 23:22:33.166][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-20 23:22:33.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.169][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.170][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-20 23:22:33.171][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-20 23:22:33.172][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.176][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-20 23:22:33.177][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-20 23:22:33.178][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.179][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.180][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.182][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-20 23:22:33.183][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-20 23:22:33.184][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.185][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.186][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[2025-01-20 23:22:33.187][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-20 23:22:33.189][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-20 23:22:33.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.191][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.192][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.193][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-20 23:22:33.194][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-20 23:22:33.198][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-20 23:22:33.199][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.200][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.201][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.202][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-20 23:22:33.204][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-20 23:22:33.205][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-20 23:22:33.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.213][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.214][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.216][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-20 23:22:33.218][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:33.219][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields.".
biodb.DEBUG[2025-01-20 23:22:33.220][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:33.222][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-20 23:22:33.223][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:33.224][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-20 23:22:33.225][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:33.227][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-20 23:22:33.228][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-20 23:22:33.229][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-20 23:22:33.230][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:33.232][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-20 23:22:33.233][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-20 23:22:33.234][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:33.235][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:33.236][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-20 23:22:33.236][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-20 23:22:33.236][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-20 23:22:33.236][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-20 23:22:33.236][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-20 23:22:33.238][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-20 23:22:33.239][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:33.240][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:33.241][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-20 23:22:33.243][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:33.244][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:33.245][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-20 23:22:33.246][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:33.247][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-20 23:22:33.248][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-20 23:22:33.250][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:33.251][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:33.252][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-20 23:22:33.254][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:33.255][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-20 23:22:33.257][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:33.258][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-20 23:22:33.259][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:33.260][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-20 23:22:33.262][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:33.263][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-20 23:22:33.264][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-20 23:22:33.265][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-20 23:22:33.266][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:33.268][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-20 23:22:33.269][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-20 23:22:33.270][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:33.271][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:33.273][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-20 23:22:33.273][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-20 23:22:33.273][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-20 23:22:33.273][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-20 23:22:33.273][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-20 23:22:33.274][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-20 23:22:33.275][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:33.276][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:33.277][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-20 23:22:33.279][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:33.280][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:33.281][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-20 23:22:33.282][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:33.283][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-20 23:22:33.284][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-20 23:22:33.285][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:33.287][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:33.288][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-20 23:22:33.290][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:33.291][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside a CSV file. It is possible to choose the separator for the CSV file, as well as match the column names with the biodb entry fields..".
biodb.DEBUG[2025-01-20 23:22:33.293][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:33.294][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-20 23:22:33.295][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:33.296][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-20 23:22:33.298][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:33.299][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-20 23:22:33.300][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-20 23:22:33.301][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-20 23:22:33.302][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:33.304][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-20 23:22:33.305][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-20 23:22:33.306][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:33.307][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:33.309][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:33.310][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-20 23:22:33.311][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:33.312][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:33.313][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-20 23:22:33.315][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:33.316][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:33.317][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-20 23:22:33.318][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:33.319][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-20 23:22:33.320][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-20 23:22:33.322][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:33.323][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:33.324][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-20 23:22:33.326][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:33.328][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-20 23:22:33.329][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:33.330][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-20 23:22:33.331][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:33.333][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-20 23:22:33.334][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:33.335][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-20 23:22:33.336][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-20 23:22:33.337][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-20 23:22:33.339][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:33.340][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-20 23:22:33.347][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-20 23:22:33.348][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:33.350][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:33.351][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:33.352][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-20 23:22:33.354][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:33.355][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:33.356][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-20 23:22:33.357][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:33.358][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:33.360][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-20 23:22:33.361][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:33.362][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-20 23:22:33.363][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-20 23:22:33.365][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:33.366][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:33.368][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-20 23:22:33.369][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.370][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.371][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.372][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.373][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.375][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.376][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.377][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.378][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.379][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.380][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.381][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.382][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.384][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.385][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.386][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.387][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.388][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.389][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.390][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.392][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.393][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.394][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.395][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.396][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.397][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.399][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.400][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.401][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.402][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.403][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.404][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.405][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.407][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.408][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.409][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.410][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".
biodb.DEBUG[2025-01-20 23:22:33.411][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.412][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.413][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.414][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.416][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[2025-01-20 23:22:33.417][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.418][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.419][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.420][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.421][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.DEBUG[2025-01-20 23:22:33.422][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.423][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.424][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.425][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.427][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[2025-01-20 23:22:33.428][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.429][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.430][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.431][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.432][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.433][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.434][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.436][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.437][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.438][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.439][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.440][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.441][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.442][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.443][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.444][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.446][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.447][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.448][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.449][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.451][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.452][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.453][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.454][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.455][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.456][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.458][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.459][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.460][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.462][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.464][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.465][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.467][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.469][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.471][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.473][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-20 23:22:33.476][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-20 23:22:33.478][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-20 23:22:33.480][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-20 23:22:33.482][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-20 23:22:33.484][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-20 23:22:33.485][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-20 23:22:33.492][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-20 23:22:33.494][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-20 23:22:33.496][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-20 23:22:33.498][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-20 23:22:33.499][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-20 23:22:33.501][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-20 23:22:33.502][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-20 23:22:33.504][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-20 23:22:33.506][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-20 23:22:33.507][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-20 23:22:33.509][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-20 23:22:33.511][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-20 23:22:33.512][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-20 23:22:33.514][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-20 23:22:33.515][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-20 23:22:33.517][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-20 23:22:33.519][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-20 23:22:33.520][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-20 23:22:33.522][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-20 23:22:33.524][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-20 23:22:33.525][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-20 23:22:33.527][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-20 23:22:33.528][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-20 23:22:33.530][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-20 23:22:33.532][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-20 23:22:33.533][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-20 23:22:33.535][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-20 23:22:33.536][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-20 23:22:33.538][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-20 23:22:33.540][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-20 23:22:33.541][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-20 23:22:33.543][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-20 23:22:33.544][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-20 23:22:33.546][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-20 23:22:33.548][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-20 23:22:33.549][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-20 23:22:33.551][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-20 23:22:33.553][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-20 23:22:33.554][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-20 23:22:33.556][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-20 23:22:33.557][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-20 23:22:33.559][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-20 23:22:33.561][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-20 23:22:33.562][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-20 23:22:33.564][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-20 23:22:33.565][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-20 23:22:33.567][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-20 23:22:33.569][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-20 23:22:33.570][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-20 23:22:33.572][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-20 23:22:33.574][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-20 23:22:33.575][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-20 23:22:33.577][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-20 23:22:33.578][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-20 23:22:33.580][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-20 23:22:33.582][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-20 23:22:33.583][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-20 23:22:33.585][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-20 23:22:33.586][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-20 23:22:33.588][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-20 23:22:33.590][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-20 23:22:33.591][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-20 23:22:33.593][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-20 23:22:33.595][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-20 23:22:33.596][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-20 23:22:33.598][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-20 23:22:33.599][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-20 23:22:33.601][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-20 23:22:33.603][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-20 23:22:33.604][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-20 23:22:33.606][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-20 23:22:33.608][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-20 23:22:33.615][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-20 23:22:33.617][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-20 23:22:33.619][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-20 23:22:33.620][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-20 23:22:33.622][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-20 23:22:33.624][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-20 23:22:33.626][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-20 23:22:33.627][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.628][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.629][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.630][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:33.634][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:33.635][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.636][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.637][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.638][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[2025-01-20 23:22:33.639][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.640][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:33.641][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:33.642][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.643][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.647][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.648][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:33.649][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:33.650][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.651][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.655][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.656][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:33.657][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:33.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.659][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.660][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.661][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.662][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.663][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:33.664][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:33.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.667][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.668][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.669][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.670][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.671][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:33.672][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:33.673][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.674][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.675][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.676][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[2025-01-20 23:22:33.677][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.679][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:33.680][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:33.682][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.684][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.685][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.687][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.689][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.690][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:33.692][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:33.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.696][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.697][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.699][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[2025-01-20 23:22:33.701][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.703][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:33.704][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:33.706][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.708][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.710][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.711][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.713][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.715][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:33.717][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:33.718][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.720][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.724][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[2025-01-20 23:22:33.725][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.727][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:33.728][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:33.729][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.730][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.731][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.732][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.734][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.735][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:33.736][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:33.737][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.738][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.740][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.741][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.743][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:33.744][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:33.745][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.746][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.747][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.748][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[2025-01-20 23:22:33.749][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.750][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:33.752][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:33.753][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.754][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.755][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.756][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.757][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.763][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:33.765][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:33.766][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.767][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.768][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.770][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.771][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.772][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:33.773][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:33.774][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.775][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.776][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.777][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.778][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:33.779][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:33.780][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:33.782][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.783][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.784][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.785][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:33.788][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-20 23:22:33.790][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-20 23:22:33.792][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:33.793][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-20 23:22:33.794][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:33.796][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-20 23:22:33.797][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:33.798][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-20 23:22:33.799][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:33.800][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-20 23:22:33.801][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-20 23:22:33.803][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-20 23:22:33.804][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:33.805][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-20 23:22:33.806][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-20 23:22:33.808][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-20 23:22:33.808][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-20 23:22:33.808][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-20 23:22:33.808][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-20 23:22:33.808][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-20 23:22:33.808][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-20 23:22:33.808][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-20 23:22:33.808][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-20 23:22:33.808][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-20 23:22:33.808][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-20 23:22:33.808][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-20 23:22:33.808][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-20 23:22:33.808][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-20 23:22:33.808][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-20 23:22:33.808][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-20 23:22:33.808][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-20 23:22:33.808][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-20 23:22:33.808][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-20 23:22:33.809][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:33.810][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-20 23:22:33.810][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-20 23:22:33.810][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-20 23:22:33.811][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-20 23:22:33.813][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:33.814][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:33.815][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-20 23:22:33.816][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:33.817][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:33.818][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-20 23:22:33.819][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-20 23:22:33.819][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-20 23:22:33.821][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-20 23:22:33.822][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-20 23:22:33.823][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:33.824][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:33.826][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-20 23:22:33.828][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-20 23:22:33.829][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-20 23:22:33.831][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-20 23:22:33.833][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-20 23:22:33.836][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-20 23:22:33.837][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-20 23:22:33.839][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-20 23:22:33.841][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-20 23:22:33.842][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-20 23:22:33.843][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-20 23:22:33.845][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-20 23:22:33.846][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-20 23:22:33.848][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-20 23:22:33.848][self$setPropertyValue] Setting property "urls" to "F:/biocbuild/bbs-3.20-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-20 23:22:33.849][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-20 23:22:33.850][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-20 23:22:33.851][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-20 23:22:33.852][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-20 23:22:33.854][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-20 23:22:33.855][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-20 23:22:33.857][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-20 23:22:33.858][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-20 23:22:33.860][private$addConnectorRules] Create new rule for URL "F:/biocbuild/bbs-3.20-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-20 23:22:33.861][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-20 23:22:33.863][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-20 23:22:33.865][biodb::testThat]
biodb.INFO [2025-01-20 23:22:33.866][biodb::testThat] Running test function  test.hmdbmetabolite.nbentries  (" HMDB metabolite returns enough entries. ").
biodb.INFO [2025-01-20 23:22:33.867][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-20 23:22:33.868][biodb::testThat]
biodb.DEBUG[2025-01-20 23:22:33.874][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:33.876][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:33.878][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-20 23:22:33.879][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:33.881][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-20 23:22:33.882][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-20 23:22:33.884][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-20 23:22:33.885][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-20 23:22:33.886][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-20 23:22:33.890][conn$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.INFO [2025-01-20 23:22:33.903][biodb::testThat]
biodb.INFO [2025-01-20 23:22:33.910][biodb::testThat] Running test function  test.old.accession  (" We can retrieve entries using old accession numbers. ").
biodb.INFO [2025-01-20 23:22:33.912][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-20 23:22:33.913][biodb::testThat]
biodb.DEBUG[2025-01-20 23:22:33.916][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-01-20 23:22:33.917][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-20 23:22:33.919][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:33.921][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-20 23:22:33.924][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-01-20 23:22:33.925][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-20 23:22:33.942][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-01-20 23:22:33.944][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-20 23:22:33.946][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-20 23:22:33.947][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-20 23:22:33.949][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-20 23:22:33.950][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:33.951][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:33.958][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:33.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:33.960][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:33.961][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-20 23:22:33.965][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:33.967][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:33.968][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:33.969][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:33.970][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:33.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:33.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:33.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:33.975][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:33.977][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:33.978][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:33.979][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:33.980][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:33.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:33.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:33.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:33.985][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:33.987][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:33.988][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:33.989][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:33.991][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:33.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:33.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:33.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:33.996][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:33.997][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:33.998][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:33.999][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.001][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:34.002][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:34.003][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.004][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.006][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:34.007][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:34.008][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.009][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.011][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:34.012][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:34.013][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.014][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.016][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:34.017][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:34.018][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.019][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.021][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:34.022][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:34.023][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.025][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.028][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:34.030][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:34.031][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.032][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.034][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:34.035][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:34.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.039][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:34.040][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:34.041][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.043][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.044][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:34.045][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:34.047][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.048][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.049][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:34.050][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:34.052][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.053][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.054][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:34.056][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:34.057][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.058][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.060][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:34.061][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:34.067][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.069][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.071][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:34.072][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:34.073][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.074][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.076][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:34.077][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:34.078][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.079][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.081][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:34.082][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:34.083][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.084][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.086][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:34.087][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:34.088][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.089][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.091][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:34.092][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:34.093][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.094][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.096][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:34.097][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:34.098][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.099][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.101][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:34.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:34.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.105][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.106][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:34.107][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:34.108][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.109][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.111][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:34.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:34.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.115][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.116][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:34.117][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:34.118][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.120][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.121][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:34.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:34.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.125][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.126][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:34.127][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:34.128][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.130][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.131][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:34.132][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:34.134][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.135][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.136][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:34.137][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:34.139][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.140][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.141][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:34.143][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:34.144][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.145][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.146][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-20 23:22:34.148][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:34.149][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.150][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.151][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-20 23:22:34.153][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:34.154][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.155][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.157][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:34.158][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:34.159][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.160][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.162][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:34.163][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:34.164][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.167][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:34.168][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:34.169][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.170][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.172][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:34.173][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:34.174][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.175][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.177][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:34.178][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:34.179][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.182][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:34.183][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:34.184][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.185][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.186][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:34.188][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:34.189][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.190][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.191][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:34.193][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:34.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.195][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.202][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:34.203][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:34.204][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.207][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:34.208][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:34.209][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.211][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.212][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:34.213][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:34.214][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.215][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.217][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:34.218][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:34.219][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.220][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.222][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:34.223][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:34.224][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.225][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.226][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:34.228][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:34.229][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.230][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.231][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:34.233][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:34.234][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.235][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.236][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:34.238][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:34.239][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.240][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.241][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:34.243][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:34.244][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.245][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.246][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:34.247][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:34.249][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.250][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.251][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:34.252][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:34.253][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.255][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.256][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:34.257][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:34.258][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.259][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.261][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:34.262][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:34.263][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.264][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.266][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:34.267][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:34.268][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.269][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.270][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:34.272][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:34.273][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.274][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.275][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:34.277][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:34.278][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.279][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.280][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:34.282][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:34.283][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.284][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.285][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:34.287][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:34.288][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.289][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.290][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:34.292][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:34.293][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.294][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.295][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:34.297][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:34.298][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.299][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.300][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:34.301][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:34.303][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.304][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.305][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:34.306][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:34.307][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.309][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.310][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:34.311][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:34.312][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.313][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.315][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:34.316][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:34.317][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.318][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.320][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:34.321][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:34.322][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.323][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.325][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:34.326][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:34.327][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.328][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.335][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:34.336][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:34.337][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.339][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.340][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:34.341][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:34.342][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.343][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.345][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:34.346][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:34.347][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.350][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:34.351][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:34.352][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.353][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.354][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:34.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:34.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.359][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:34.361][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:34.362][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.363][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.364][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:34.365][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:34.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.369][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:34.370][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:34.371][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.373][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.374][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:34.375][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:34.376][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.377][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.379][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:34.380][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:34.381][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.382][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.383][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:34.385][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:34.386][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.387][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.388][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:34.390][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:34.391][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.392][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.393][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:34.394][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:34.396][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.397][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.398][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:34.399][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:34.400][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.402][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.403][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:34.404][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:34.405][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.406][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.408][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:34.409][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:34.410][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.411][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.413][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:34.414][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:34.415][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.416][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.418][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:34.419][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:34.420][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.421][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.422][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:34.424][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:34.425][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.426][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.427][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:34.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:34.430][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.431][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.432][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-20 23:22:34.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:34.435][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.436][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.437][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:34.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:34.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.441][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.442][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:34.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:34.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.447][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:34.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:34.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.452][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-20 23:22:34.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:34.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.457][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:34.459][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:34.465][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.467][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.468][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:34.469][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:34.470][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.472][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.473][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:34.474][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:34.475][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.476][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.478][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:34.479][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:34.480][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.482][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.483][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:34.484][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:34.485][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.487][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.488][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:34.490][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:34.491][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.492][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.493][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:34.495][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:34.496][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.497][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.498][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:34.500][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:34.501][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.502][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.503][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:34.504][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:34.506][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.507][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.508][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:34.509][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:34.511][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.512][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.513][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:34.514][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:34.515][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.516][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.518][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:34.519][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:34.520][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.521][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.523][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:34.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:34.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.528][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:34.529][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:34.530][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.531][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.532][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:34.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:34.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:34.537][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-01-20 23:22:34.540][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:34.541][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:34.543][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.544][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.545][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:34.546][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:34.548][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.549][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:34.550][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:34.551][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:34.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:34.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.INFO [2025-01-20 23:22:34.580][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-20 23:22:34.582][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-20 23:22:34.583][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-20 23:22:34.584][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-20 23:22:34.585][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:34.587][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:34.588][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:34.589][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:34.590][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.591][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-20 23:22:34.597][biodb::testContext]
biodb.INFO [2025-01-20 23:22:34.598][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-20 23:22:34.599][biodb::testContext] Test context - Test search of entries
biodb.INFO [2025-01-20 23:22:34.600][biodb::testContext] ********************************************************************************
biodb.INFO [2025-01-20 23:22:34.602][biodb::testContext]
biodb.INFO [2025-01-20 23:22:34.608][private$loadBiodbPkgsDefinitions] Loading definitions from package biodb version 1.14.0.
biodb.DEBUG[2025-01-20 23:22:34.610][self$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodb/definitions.yml".
biodb.DEBUG[2025-01-20 23:22:34.616][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-20 23:22:34.617][self$getConfig()$define] Define config key allow.huge.downloads.
biodb.DEBUG[2025-01-20 23:22:34.618][self$set] Set key allow.huge.downloads to TRUE.
biodb.DEBUG[2025-01-20 23:22:34.619][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.621][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.622][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.628][self$getConfig()$define] Define config key autoload.extra.pkgs.
biodb.DEBUG[2025-01-20 23:22:34.630][self$set] Set key autoload.extra.pkgs to TRUE.
biodb.DEBUG[2025-01-20 23:22:34.631][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.632][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.633][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.635][self$getConfig()$define] Define config key cache.all.requests.
biodb.DEBUG[2025-01-20 23:22:34.636][self$set] Set key cache.all.requests to TRUE.
biodb.DEBUG[2025-01-20 23:22:34.637][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.638][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.639][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.640][self$getConfig()$define] Define config key cache.directory.
biodb.DEBUG[2025-01-20 23:22:34.641][self$getConfig()$define] Define config key cache.read.only.
biodb.DEBUG[2025-01-20 23:22:34.643][self$set] Set key cache.read.only to FALSE.
biodb.DEBUG[2025-01-20 23:22:34.644][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.645][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.646][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.647][self$getConfig()$define] Define config key cache.subfolders.
biodb.DEBUG[2025-01-20 23:22:34.648][self$getConfig()$define] Define config key cache.system.
biodb.DEBUG[2025-01-20 23:22:34.650][self$set] Set key cache.system to TRUE.
biodb.DEBUG[2025-01-20 23:22:34.651][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.652][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.653][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.654][self$getConfig()$define] Define config key use.cache.for.local.db.
biodb.DEBUG[2025-01-20 23:22:34.655][self$set] Set key use.cache.for.local.db to FALSE.
biodb.DEBUG[2025-01-20 23:22:34.656][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.658][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.659][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.660][self$getConfig()$define] Define config key dwnld.chunk.size.
biodb.DEBUG[2025-01-20 23:22:34.661][self$getConfig()$define] Define config key dwnld.timeout.
biodb.DEBUG[2025-01-20 23:22:34.662][self$set] Set key dwnld.timeout to 3600.
biodb.DEBUG[2025-01-20 23:22:34.663][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.665][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.667][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.669][self$getConfig()$define] Define config key compute.fields.
biodb.DEBUG[2025-01-20 23:22:34.671][self$set] Set key compute.fields to TRUE.
biodb.DEBUG[2025-01-20 23:22:34.673][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.674][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.676][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.678][self$getConfig()$define] Define config key factory.cache.
biodb.DEBUG[2025-01-20 23:22:34.679][self$getConfig()$define] Define config key force.locale.
biodb.DEBUG[2025-01-20 23:22:34.681][self$set] Set key force.locale to TRUE.
biodb.DEBUG[2025-01-20 23:22:34.682][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.683][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.684][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.685][self$getConfig()$define] Define config key longterm.cache.subfolder.
biodb.DEBUG[2025-01-20 23:22:34.686][self$getConfig()$define] Define config key msg.caution.lvl.
biodb.DEBUG[2025-01-20 23:22:34.688][self$getConfig()$define] Define config key msg.debug.lvl.
biodb.DEBUG[2025-01-20 23:22:34.689][self$getConfig()$define] Define config key msg.info.lvl.
biodb.DEBUG[2025-01-20 23:22:34.690][self$getConfig()$define] Define config key multival.field.sep.
biodb.DEBUG[2025-01-20 23:22:34.691][self$set] Set key multival.field.sep to ";".
biodb.DEBUG[2025-01-20 23:22:34.692][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.694][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.695][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.696][self$getConfig()$define] Define config key intra.field.name.sep.
biodb.DEBUG[2025-01-20 23:22:34.697][self$set] Set key intra.field.name.sep to ".".
biodb.DEBUG[2025-01-20 23:22:34.698][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.699][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.700][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.702][self$getConfig()$define] Define config key entries.sep.
biodb.DEBUG[2025-01-20 23:22:34.703][self$set] Set key entries.sep to "|".
biodb.DEBUG[2025-01-20 23:22:34.704][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.705][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.706][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.707][self$getConfig()$define] Define config key offline.
biodb.DEBUG[2025-01-20 23:22:34.709][self$set] Set key offline to FALSE.
biodb.DEBUG[2025-01-20 23:22:34.710][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.711][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.712][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.713][self$getConfig()$define] Define config key persistent.cache.impl.
biodb.DEBUG[2025-01-20 23:22:34.714][self$set] Set key persistent.cache.impl to "custom".
biodb.DEBUG[2025-01-20 23:22:34.716][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.717][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.718][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.719][self$getConfig()$define] Define config key proton.mass.
biodb.DEBUG[2025-01-20 23:22:34.720][self$set] Set key proton.mass to 1.0072765.
biodb.DEBUG[2025-01-20 23:22:34.721][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.722][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.723][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.725][self$getConfig()$define] Define config key shortterm.cache.subfolder.
biodb.DEBUG[2025-01-20 23:22:34.726][self$getConfig()$define] Define config key svn.binary.path.
biodb.DEBUG[2025-01-20 23:22:34.729][self$set] Set key svn.binary.path to "".
biodb.DEBUG[2025-01-20 23:22:34.730][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.732][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.733][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.734][self$getConfig()$define] Define config key test.functions.
biodb.DEBUG[2025-01-20 23:22:34.735][self$getConfig()$define] Define config key useragent.
biodb.DEBUG[2025-01-20 23:22:34.736][self$set] Set key useragent to "R Bioconductor biodb library.".
biodb.DEBUG[2025-01-20 23:22:34.738][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.739][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.740][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[2025-01-20 23:22:34.741][self$getDbsInfo()$define] Define connector comp.csv.file.
biodb.DEBUG[2025-01-20 23:22:34.743][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:34.745][self$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[2025-01-20 23:22:34.746][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:34.747][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-20 23:22:34.748][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:34.750][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-20 23:22:34.751][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:34.752][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-20 23:22:34.753][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-20 23:22:34.755][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-20 23:22:34.756][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:34.757][self$setPropertyValue] Setting property "name" to "Compound CSV File".
biodb.DEBUG[2025-01-20 23:22:34.758][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-20 23:22:34.760][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:34.766][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:34.768][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-20 23:22:34.768][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-20 23:22:34.768][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-20 23:22:34.768][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-20 23:22:34.768][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-20 23:22:34.769][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-20 23:22:34.770][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:34.771][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:34.773][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-20 23:22:34.774][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:34.775][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:34.776][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-20 23:22:34.777][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:34.779][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-20 23:22:34.780][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-20 23:22:34.781][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:34.782][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:34.784][self$getDbsInfo()$define] Define connector comp.sqlite.
biodb.DEBUG[2025-01-20 23:22:34.786][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:34.787][self$setPropertyValue] Setting property "description" to "A connector to handle a compound database stored inside an SQLite file.".
biodb.DEBUG[2025-01-20 23:22:34.788][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:34.789][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-20 23:22:34.791][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:34.792][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-20 23:22:34.793][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:34.794][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-20 23:22:34.796][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-20 23:22:34.797][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-20 23:22:34.798][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:34.799][self$setPropertyValue] Setting property "name" to "Compound SQLite".
biodb.DEBUG[2025-01-20 23:22:34.801][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-20 23:22:34.802][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:34.803][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:34.804][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-20 23:22:34.804][self$setPropertyValue] Setting property "searchable.fields" to "monoisotopic.mass".
biodb.DEBUG[2025-01-20 23:22:34.804][self$setPropertyValue] Setting property "searchable.fields" to "molecular.mass".
biodb.DEBUG[2025-01-20 23:22:34.804][self$setPropertyValue] Setting property "searchable.fields" to "average.mass".
biodb.DEBUG[2025-01-20 23:22:34.804][self$setPropertyValue] Setting property "searchable.fields" to "nominal.mass".
biodb.DEBUG[2025-01-20 23:22:34.806][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-20 23:22:34.807][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:34.808][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:34.809][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-20 23:22:34.810][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:34.811][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:34.812][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-20 23:22:34.814][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:34.815][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-20 23:22:34.816][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-20 23:22:34.817][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:34.818][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:34.820][self$getDbsInfo()$define] Define connector mass.csv.file.
biodb.DEBUG[2025-01-20 23:22:34.822][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:34.823][self$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[2025-01-20 23:22:34.824][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:34.826][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-20 23:22:34.827][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:34.828][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-20 23:22:34.829][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:34.830][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-20 23:22:34.832][self$setPropertyValue] Setting property "entry.content.type" to "tsv".
biodb.DEBUG[2025-01-20 23:22:34.833][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-20 23:22:34.834][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:34.835][self$setPropertyValue] Setting property "name" to "Mass spectra CSV File".
biodb.DEBUG[2025-01-20 23:22:34.837][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-20 23:22:34.838][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:34.839][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:34.840][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:34.842][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-20 23:22:34.843][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:34.844][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:34.845][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-20 23:22:34.846][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:34.847][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:34.849][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-20 23:22:34.850][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:34.851][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-20 23:22:34.852][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-20 23:22:34.853][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:34.855][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:34.856][self$getDbsInfo()$define] Define connector mass.sqlite.
biodb.DEBUG[2025-01-20 23:22:34.858][self$setPropertyValue] Setting property "compound.db" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:34.859][self$setPropertyValue] Setting property "description" to "A connector to handle a mass spectra database stored inside an SQLite file.".
biodb.DEBUG[2025-01-20 23:22:34.860][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:34.862][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-20 23:22:34.863][self$setPropertyValue] Setting property "downloadable" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:34.864][self$setPropertyValue] Setting property "dwnld.ext" to "NA".
biodb.DEBUG[2025-01-20 23:22:34.865][self$setPropertyValue] Setting property "editable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:34.867][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-20 23:22:34.868][self$setPropertyValue] Setting property "entry.content.type" to "list".
biodb.DEBUG[2025-01-20 23:22:34.869][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-20 23:22:34.870][self$setPropertyValue] Setting property "mass.db" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:34.872][self$setPropertyValue] Setting property "name" to "Mass spectra SQLite".
biodb.DEBUG[2025-01-20 23:22:34.873][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-20 23:22:34.874][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:34.875][self$setPropertyValue] Setting property "remote" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:34.876][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:34.878][self$setPropertyValue] Setting property "scheduler.n" to "1".
biodb.DEBUG[2025-01-20 23:22:34.879][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:34.880][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:34.881][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-20 23:22:34.882][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:34.884][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:34.885][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-20 23:22:34.886][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:34.887][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-20 23:22:34.888][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-20 23:22:34.894][self$setPropertyValue] Setting property "writable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:34.896][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:34.898][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-20 23:22:34.899][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.900][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[2025-01-20 23:22:34.901][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.902][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:34.904][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:34.905][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.906][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.907][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.908][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:34.909][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:34.910][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.911][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.912][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.914][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:34.915][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:34.916][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.917][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.918][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.919][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:34.920][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:34.922][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.923][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[2025-01-20 23:22:34.924][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.925][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:34.926][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:34.927][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.928][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.929][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.931][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:34.932][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:34.933][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.934][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.935][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.936][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:34.937][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:34.938][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.939][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.941][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.942][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:34.943][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:34.944][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.945][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.946][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.947][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:34.948][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:34.949][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.951][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[2025-01-20 23:22:34.952][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.953][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:34.954][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:34.955][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.956][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.957][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.958][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:34.959][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:34.961][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.962][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[2025-01-20 23:22:34.963][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.964][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:34.965][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:34.966][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.967][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[2025-01-20 23:22:34.968][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.970][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:34.971][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:34.972][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.973][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[2025-01-20 23:22:34.974][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.975][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:34.976][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:34.977][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.978][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.980][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.981][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:34.982][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:34.983][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.984][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.985][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.986][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:34.987][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:34.988][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.990][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[2025-01-20 23:22:34.991][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:34.992][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:34.993][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:34.994][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:34.995][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:34.996][self$getEntryFields()$define] Define field accession.
biodb.DEBUG[2025-01-20 23:22:34.998][self$getEntryFields()$define] Define field description.
biodb.DEBUG[2025-01-20 23:22:35.000][self$getEntryFields()$define] Define field name.
biodb.DEBUG[2025-01-20 23:22:35.001][self$getEntryFields()$define] Define field cas.id.
biodb.DEBUG[2025-01-20 23:22:35.003][self$getEntryFields()$define] Define field chebi.id.
biodb.DEBUG[2025-01-20 23:22:35.005][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-20 23:22:35.006][self$getEntryFields()$define] Define field comp.csv.file.id.
biodb.DEBUG[2025-01-20 23:22:35.008][self$getEntryFields()$define] Define field comp.sqlite.id.
biodb.DEBUG[2025-01-20 23:22:35.010][self$getEntryFields()$define] Define field expasy.enzyme.id.
biodb.DEBUG[2025-01-20 23:22:35.011][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-20 23:22:35.013][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-20 23:22:35.015][self$getEntryFields()$define] Define field kegg.genes.id.
biodb.DEBUG[2025-01-20 23:22:35.017][self$getEntryFields()$define] Define field mass.csv.file.id.
biodb.DEBUG[2025-01-20 23:22:35.026][self$getEntryFields()$define] Define field mass.sqlite.id.
biodb.DEBUG[2025-01-20 23:22:35.028][self$getEntryFields()$define] Define field ncbi.gene.id.
biodb.DEBUG[2025-01-20 23:22:35.030][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-20 23:22:35.032][self$getEntryFields()$define] Define field compound.id.
biodb.DEBUG[2025-01-20 23:22:35.033][self$getEntryFields()$define] Define field average.mass.
biodb.DEBUG[2025-01-20 23:22:35.035][self$getEntryFields()$define] Define field molecular.mass.
biodb.DEBUG[2025-01-20 23:22:35.037][self$getEntryFields()$define] Define field monoisotopic.mass.
biodb.DEBUG[2025-01-20 23:22:35.038][self$getEntryFields()$define] Define field nominal.mass.
biodb.DEBUG[2025-01-20 23:22:35.040][self$getEntryFields()$define] Define field peak.attr.
biodb.DEBUG[2025-01-20 23:22:35.042][self$getEntryFields()$define] Define field peak.comp.
biodb.DEBUG[2025-01-20 23:22:35.043][self$getEntryFields()$define] Define field peak.error.ppm.
biodb.DEBUG[2025-01-20 23:22:35.045][self$getEntryFields()$define] Define field peak.formula.
biodb.DEBUG[2025-01-20 23:22:35.046][self$getEntryFields()$define] Define field peak.intensity.
biodb.DEBUG[2025-01-20 23:22:35.048][self$getEntryFields()$define] Define field peak.mass.
biodb.DEBUG[2025-01-20 23:22:35.050][self$getEntryFields()$define] Define field peak.mztheo.
biodb.DEBUG[2025-01-20 23:22:35.051][self$getEntryFields()$define] Define field peak.mzexp.
biodb.DEBUG[2025-01-20 23:22:35.053][self$getEntryFields()$define] Define field peak.mz.
biodb.DEBUG[2025-01-20 23:22:35.055][self$getEntryFields()$define] Define field peak.relative.intensity.
biodb.DEBUG[2025-01-20 23:22:35.057][self$getEntryFields()$define] Define field peaks.
biodb.DEBUG[2025-01-20 23:22:35.058][self$getEntryFields()$define] Define field chrom.col.constructor.
biodb.DEBUG[2025-01-20 23:22:35.060][self$getEntryFields()$define] Define field chrom.col.diameter.
biodb.DEBUG[2025-01-20 23:22:35.061][self$getEntryFields()$define] Define field chrom.col.id.
biodb.DEBUG[2025-01-20 23:22:35.063][self$getEntryFields()$define] Define field chrom.col.length.
biodb.DEBUG[2025-01-20 23:22:35.065][self$getEntryFields()$define] Define field chrom.col.method.protocol.
biodb.DEBUG[2025-01-20 23:22:35.066][self$getEntryFields()$define] Define field chrom.col.name.
biodb.DEBUG[2025-01-20 23:22:35.068][self$getEntryFields()$define] Define field chrom.flow.gradient.
biodb.DEBUG[2025-01-20 23:22:35.069][self$getEntryFields()$define] Define field chrom.flow.rate.
biodb.DEBUG[2025-01-20 23:22:35.071][self$getEntryFields()$define] Define field chrom.rt.
biodb.DEBUG[2025-01-20 23:22:35.073][self$getEntryFields()$define] Define field chrom.rt.max.
biodb.DEBUG[2025-01-20 23:22:35.074][self$getEntryFields()$define] Define field chrom.rt.min.
biodb.DEBUG[2025-01-20 23:22:35.076][self$getEntryFields()$define] Define field chrom.rt.unit.
biodb.DEBUG[2025-01-20 23:22:35.078][self$getEntryFields()$define] Define field chrom.solvent.
biodb.DEBUG[2025-01-20 23:22:35.079][self$getEntryFields()$define] Define field aa.seq.
biodb.DEBUG[2025-01-20 23:22:35.081][self$getEntryFields()$define] Define field aa.seq.length.
biodb.DEBUG[2025-01-20 23:22:35.082][self$getEntryFields()$define] Define field aa.seq.location.
biodb.DEBUG[2025-01-20 23:22:35.084][self$getEntryFields()$define] Define field nt.seq.
biodb.DEBUG[2025-01-20 23:22:35.086][self$getEntryFields()$define] Define field nt.seq.length.
biodb.DEBUG[2025-01-20 23:22:35.087][self$getEntryFields()$define] Define field ec.
biodb.DEBUG[2025-01-20 23:22:35.089][self$getEntryFields()$define] Define field organism.
biodb.DEBUG[2025-01-20 23:22:35.091][self$getEntryFields()$define] Define field pathway.class.
biodb.DEBUG[2025-01-20 23:22:35.092][self$getEntryFields()$define] Define field catalytic.activity.
biodb.DEBUG[2025-01-20 23:22:35.094][self$getEntryFields()$define] Define field cofactor.
biodb.DEBUG[2025-01-20 23:22:35.096][self$getEntryFields()$define] Define field gene.symbol.
biodb.DEBUG[2025-01-20 23:22:35.097][self$getEntryFields()$define] Define field charge.
biodb.DEBUG[2025-01-20 23:22:35.099][self$getEntryFields()$define] Define field comp.iupac.name.allowed.
biodb.DEBUG[2025-01-20 23:22:35.100][self$getEntryFields()$define] Define field comp.iupac.name.cas.
biodb.DEBUG[2025-01-20 23:22:35.102][self$getEntryFields()$define] Define field comp.iupac.name.pref.
biodb.DEBUG[2025-01-20 23:22:35.104][self$getEntryFields()$define] Define field comp.iupac.name.syst.
biodb.DEBUG[2025-01-20 23:22:35.105][self$getEntryFields()$define] Define field comp.iupac.name.trad.
biodb.DEBUG[2025-01-20 23:22:35.107][self$getEntryFields()$define] Define field comp.super.class.
biodb.DEBUG[2025-01-20 23:22:35.109][self$getEntryFields()$define] Define field equation.
biodb.DEBUG[2025-01-20 23:22:35.110][self$getEntryFields()$define] Define field formula.
biodb.DEBUG[2025-01-20 23:22:35.112][self$getEntryFields()$define] Define field composition.
biodb.DEBUG[2025-01-20 23:22:35.113][self$getEntryFields()$define] Define field inchi.
biodb.DEBUG[2025-01-20 23:22:35.115][self$getEntryFields()$define] Define field inchikey.
biodb.DEBUG[2025-01-20 23:22:35.117][self$getEntryFields()$define] Define field logp.
biodb.DEBUG[2025-01-20 23:22:35.118][self$getEntryFields()$define] Define field ms.level.
biodb.DEBUG[2025-01-20 23:22:35.120][self$getEntryFields()$define] Define field ms.mode.
biodb.DEBUG[2025-01-20 23:22:35.122][self$getEntryFields()$define] Define field msdev.
biodb.DEBUG[2025-01-20 23:22:35.123][self$getEntryFields()$define] Define field msdevtype.
biodb.DEBUG[2025-01-20 23:22:35.125][self$getEntryFields()$define] Define field msprecannot.
biodb.DEBUG[2025-01-20 23:22:35.126][self$getEntryFields()$define] Define field msprecmz.
biodb.DEBUG[2025-01-20 23:22:35.128][self$getEntryFields()$define] Define field mstype.
biodb.DEBUG[2025-01-20 23:22:35.130][self$getEntryFields()$define] Define field nb.compounds.
biodb.DEBUG[2025-01-20 23:22:35.131][self$getEntryFields()$define] Define field nb.peaks.
biodb.DEBUG[2025-01-20 23:22:35.133][self$getEntryFields()$define] Define field products.
biodb.DEBUG[2025-01-20 23:22:35.135][self$getEntryFields()$define] Define field smiles.
biodb.DEBUG[2025-01-20 23:22:35.136][self$getEntryFields()$define] Define field smiles.canonical.
biodb.DEBUG[2025-01-20 23:22:35.138][self$getEntryFields()$define] Define field smiles.isomeric.
biodb.DEBUG[2025-01-20 23:22:35.139][self$getEntryFields()$define] Define field substrates.
biodb.DEBUG[2025-01-20 23:22:35.149][initialize] Created successfully new BiodbMain instance.
biodb.DEBUG[2025-01-20 23:22:35.152][initialize] This is biodb version 1.14.0.
biodb.DEBUG[2025-01-20 23:22:35.153][notifyObservers] Notify observers for notifyNewObservers.
biodb.DEBUG[2025-01-20 23:22:35.154][FUN] Trying to call function notifyNewObservers on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:35.156][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:35.157][FUN] Trying to call function notifyNewObservers on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:35.158][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:35.159][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:35.160][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:35.162][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:35.163][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:35.164][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:35.165][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:35.166][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[2025-01-20 23:22:35.167][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:35.168][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:35.169][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:35.170][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:35.171][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:35.173][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:35.174][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:35.175][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:35.176][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:35.177][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:35.178][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:35.179][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:35.180][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:35.182][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:35.183][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:35.184][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:35.185][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:35.186][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:35.187][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:35.188][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:35.189][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:35.190][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:35.192][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:35.193][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:35.194][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:35.195][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:35.196][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:35.197][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.DEBUG[2025-01-20 23:22:35.198][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:35.199][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:35.200][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:35.201][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:35.203][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:35.204][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:35.205][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:35.206][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:35.207][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:35.208][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:35.209][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:35.210][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:35.211][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:35.213][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[2025-01-20 23:22:35.214][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:35.215][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:35.216][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:35.217][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:35.218][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:35.219][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:35.220][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:35.222][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:35.223][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:35.224][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:35.225][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:35.226][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:35.227][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:35.228][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:35.229][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:35.230][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:35.231][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:35.233][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:35.234][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:35.235][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:35.236][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:35.237][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:35.238][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:35.239][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:35.240][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:35.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:35.242][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:35.244][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[2025-01-20 23:22:35.245][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:35.246][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:35.247][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:35.248][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:35.249][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:35.250][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:35.251][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:35.252][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:35.254][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:35.255][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:35.256][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:35.257][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:35.258][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:35.259][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[2025-01-20 23:22:35.261][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:35.263][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:35.264][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:35.266][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:35.268][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:35.269][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:35.271][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:35.273][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:35.274][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:35.276][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:35.277][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:35.287][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:35.289][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:35.291][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:35.293][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:35.294][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:35.296][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:35.297][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:35.299][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:35.301][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:35.302][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:35.304][notifyObservers] Notify observers for notifyCfgUpdate.
biodb.DEBUG[2025-01-20 23:22:35.305][FUN] Trying to call function notifyCfgUpdate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:35.307][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:35.308][FUN] Trying to call function notifyCfgUpdate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:35.309][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:35.310][FUN] Trying to call function notifyCfgUpdate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:35.311][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:35.314][biodb$loadDefinitions] Load definitions from file "F:/biocbuild/bbs-3.20-bioc/R/library/biodbHmdb/definitions.yml".
biodb.DEBUG[2025-01-20 23:22:35.316][self$getDbsInfo()$define] Define connector hmdb.metabolites.
biodb.DEBUG[2025-01-20 23:22:35.318][self$setPropertyValue] Setting property "compound.db" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:35.320][self$setPropertyValue] Setting property "description" to "NA".
biodb.DEBUG[2025-01-20 23:22:35.321][self$setPropertyValue] Setting property "disabled" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:35.322][self$setPropertyValue] Setting property "disabling.reason" to "".
biodb.DEBUG[2025-01-20 23:22:35.323][self$setPropertyValue] Setting property "downloadable" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:35.325][self$setPropertyValue] Setting property "dwnld.ext" to "zip".
biodb.DEBUG[2025-01-20 23:22:35.326][self$setPropertyValue] Setting property "editable" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:35.327][self$setPropertyValue] Setting property "entry.content.encoding" to "NA".
biodb.DEBUG[2025-01-20 23:22:35.328][self$setPropertyValue] Setting property "entry.content.type" to "xml".
biodb.DEBUG[2025-01-20 23:22:35.330][self$setPropertyValue] Setting property "matching.fields" to "c("peak.mztheo", "peak.mzexp")".
biodb.DEBUG[2025-01-20 23:22:35.331][self$setPropertyValue] Setting property "mass.db" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:35.332][self$setPropertyValue] Setting property "name" to "HMDB Metabolites".
biodb.DEBUG[2025-01-20 23:22:35.333][self$setPropertyValue] Setting property "package" to "biodb".
biodb.DEBUG[2025-01-20 23:22:35.334][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/accession".
biodb.DEBUG[2025-01-20 23:22:35.334][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/secondary_accessions/accession".
biodb.DEBUG[2025-01-20 23:22:35.334][self$setPropertyValue] Setting property "parsing.expr" to "//average_molecular_weight".
biodb.DEBUG[2025-01-20 23:22:35.334][self$setPropertyValue] Setting property "parsing.expr" to "//cas_registry_number".
biodb.DEBUG[2025-01-20 23:22:35.334][self$setPropertyValue] Setting property "parsing.expr" to "//chebi_id".
biodb.DEBUG[2025-01-20 23:22:35.334][self$setPropertyValue] Setting property "parsing.expr" to "//chemspider_id".
biodb.DEBUG[2025-01-20 23:22:35.334][self$setPropertyValue] Setting property "parsing.expr" to "//kegg_id".
biodb.DEBUG[2025-01-20 23:22:35.334][self$setPropertyValue] Setting property "parsing.expr" to "//pubchem_compound_id".
biodb.DEBUG[2025-01-20 23:22:35.334][self$setPropertyValue] Setting property "parsing.expr" to "//iupac_name".
biodb.DEBUG[2025-01-20 23:22:35.334][self$setPropertyValue] Setting property "parsing.expr" to "//traditional_iupac".
biodb.DEBUG[2025-01-20 23:22:35.334][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/chemical_formula".
biodb.DEBUG[2025-01-20 23:22:35.334][self$setPropertyValue] Setting property "parsing.expr" to "//inchi".
biodb.DEBUG[2025-01-20 23:22:35.334][self$setPropertyValue] Setting property "parsing.expr" to "//inchikey".
biodb.DEBUG[2025-01-20 23:22:35.334][self$setPropertyValue] Setting property "parsing.expr" to "//monisotopic_molecular_weight".
biodb.DEBUG[2025-01-20 23:22:35.334][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/name".
biodb.DEBUG[2025-01-20 23:22:35.334][self$setPropertyValue] Setting property "parsing.expr" to "/metabolite/description".
biodb.DEBUG[2025-01-20 23:22:35.334][self$setPropertyValue] Setting property "parsing.expr" to "//smiles".
biodb.DEBUG[2025-01-20 23:22:35.334][self$setPropertyValue] Setting property "parsing.expr" to "//super_class".
biodb.DEBUG[2025-01-20 23:22:35.336][self$setPropertyValue] Setting property "remote" to "TRUE".
biodb.DEBUG[2025-01-20 23:22:35.337][self$setPropertyValue] Setting property "searchable.fields" to "name".
biodb.DEBUG[2025-01-20 23:22:35.337][self$setPropertyValue] Setting property "searchable.fields" to "description".
biodb.DEBUG[2025-01-20 23:22:35.337][self$setPropertyValue] Setting property "searchable.fields" to "secondary.accessions".
biodb.DEBUG[2025-01-20 23:22:35.338][self$setPropertyValue] Setting property "scheduler.n" to "3".
biodb.DEBUG[2025-01-20 23:22:35.340][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:35.341][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:35.342][self$setPropertyValue] Setting property "scheduler.t" to "1".
biodb.DEBUG[2025-01-20 23:22:35.343][self$setPropertyValue] Notifying observers about frequency change.
biodb.DEBUG[2025-01-20 23:22:35.344][notifyObservers] Notify observers for notifyConnSchedulerFrequencyUpdated.
biodb.DEBUG[2025-01-20 23:22:35.345][self$setPropertyValue] Setting property "token" to "NA".
biodb.DEBUG[2025-01-20 23:22:35.347][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-20 23:22:35.347][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/system/downloads/current/hmdb_metabolites.zip".
biodb.DEBUG[2025-01-20 23:22:35.348][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-20 23:22:35.349][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-20 23:22:35.350][self$setPropertyValue] Setting property "writable" to "FALSE".
biodb.DEBUG[2025-01-20 23:22:35.351][self$setPropertyValue]
biodb.DEBUG[2025-01-20 23:22:35.353][self$getEntryFields()$define] Define field secondary_accessions.
biodb.DEBUG[2025-01-20 23:22:35.355][self$getEntryFields()$define] Define field chemspider.id.
biodb.DEBUG[2025-01-20 23:22:35.356][self$getEntryFields()$define] Define field hmdb.metabolites.id.
biodb.DEBUG[2025-01-20 23:22:35.358][self$getEntryFields()$define] Define field kegg.compound.id.
biodb.DEBUG[2025-01-20 23:22:35.360][self$getEntryFields()$define] Define field ncbi.pubchem.comp.id.
biodb.DEBUG[2025-01-20 23:22:35.363][initialize] Initialize connector hmdb.metabolites.
biodb.DEBUG[2025-01-20 23:22:35.365][initialize] Register connector hmdb.metabolites with the request scheduler
biodb.DEBUG[2025-01-20 23:22:35.366][private$bdb$getRequestScheduler()$re ...] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-20 23:22:35.368][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-20 23:22:35.369][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-20 23:22:35.371][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-20 23:22:35.372][rule$addConnector] Connector "hmdb.metabolites" is already listed in rule "www.hmdb.ca".
biodb.DEBUG[2025-01-20 23:22:35.373][biodb$getFactory()$createConn] Creating new connector hmdb.metabolites for database class hmdb.metabolites .
biodb.DEBUG[2025-01-20 23:22:35.375][self$setPropertyValue] Setting property "urls" to "http://www.hmdb.ca/".
biodb.DEBUG[2025-01-20 23:22:35.375][self$setPropertyValue] Setting property "urls" to "F:/biocbuild/bbs-3.20-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip".
biodb.DEBUG[2025-01-20 23:22:35.376][self$setPropertyValue] Notifying observers about URLs change.
biodb.DEBUG[2025-01-20 23:22:35.377][notifyObservers] Notify observers for notifyConnUrlsUpdated.
biodb.DEBUG[2025-01-20 23:22:35.378][FUN] Trying to call function notifyConnUrlsUpdated on observer BiodbRequestScheduler.
biodb.DEBUG[2025-01-20 23:22:35.379][FUN] Functions in observer BiodbRequestScheduler: [15]: ".__enclos_env__, clone, getAllRules, unregisterConnector, registerConnector, getConnectorRules, findRule, getUrl, getUrlString, notifyConnSchedulerFrequencyUpdated, notifyConnUrlsUpdated, downloadFile, sendRequest, sendSoapRequest, initialize".
biodb.DEBUG[2025-01-20 23:22:35.381][self$registerConnector] Register connector hmdb.metabolites.
biodb.DEBUG[2025-01-20 23:22:35.383][private$addConnectorRules] Create new rule for URL "www.hmdb.ca" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-20 23:22:35.384][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-20 23:22:35.386][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-20 23:22:35.387][private$addConnectorRules] Create new rule for URL "F:/biocbuild/bbs-3.20-bioc/R/library/biodbHmdb/extdata/generated/hmdb_extract.zip" of connector "hmdb.metabolites".
biodb.DEBUG[2025-01-20 23:22:35.389][self$setFrequency] t=1.000000, n=3.000000
biodb.DEBUG[2025-01-20 23:22:35.390][self$setFrequency] t=1.000000, n=3.000000
biodb.INFO [2025-01-20 23:22:35.392][biodb::testThat]
biodb.INFO [2025-01-20 23:22:35.393][biodb::testThat] Running test function  test.searchMultipleWordsInDescription  (" We can search for multiple words inside description field. ").
biodb.INFO [2025-01-20 23:22:35.395][biodb::testThat] --------------------------------------------------------------------------------
biodb.INFO [2025-01-20 23:22:35.396][biodb::testThat]
biodb.DEBUG[2025-01-20 23:22:35.399][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-20 23:22:35.400][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-01-20 23:22:35.401][private$doSearchForEntries] fields VALUES = and
biodb.DEBUG[2025-01-20 23:22:35.406][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:35.408][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:35.410][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-20 23:22:35.412][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:35.413][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-20 23:22:35.414][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-20 23:22:35.416][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-20 23:22:35.417][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-20 23:22:35.418][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-20 23:22:35.420][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-20 23:22:35.421][private$doSearchForEntries] Total number of IDs = 2
biodb.DEBUG[2025-01-20 23:22:35.429][private$loadEntries] Creating entries from ids [1]: "HMDB0000001".
biodb.DEBUG[2025-01-20 23:22:35.430][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-20 23:22:35.433][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:35.435][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-20 23:22:35.437][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000001".
biodb.TRACE[2025-01-20 23:22:35.439][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-20 23:22:35.442][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000001.xml".
biodb.DEBUG[2025-01-20 23:22:35.444][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-20 23:22:35.445][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-20 23:22:35.447][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-20 23:22:35.450][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-20 23:22:35.452][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:35.453][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:35.467][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:35.468][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:35.469][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:35.470][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-20 23:22:35.475][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:35.476][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:35.477][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.478][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.480][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:35.481][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:35.482][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.483][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.485][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:35.486][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:35.487][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.488][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.490][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:35.491][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:35.492][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.495][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:35.496][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:35.498][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.499][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.500][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:35.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:35.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.505][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:35.507][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:35.508][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.509][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.511][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:35.512][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:35.513][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.516][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:35.517][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:35.519][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.521][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.523][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:35.524][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:35.525][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.526][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.528][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:35.529][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:35.530][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.531][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.533][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:35.534][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:35.535][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.536][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.538][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:35.539][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:35.540][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.541][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.543][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:35.544][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:35.546][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.547][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.548][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:35.549][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:35.551][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.552][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.553][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:35.555][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:35.556][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.557][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.558][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:35.560][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:35.561][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.562][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.564][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:35.565][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:35.566][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.567][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.569][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:35.575][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:35.577][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.578][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.580][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:35.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:35.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.584][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.585][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:35.586][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:35.587][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.589][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.590][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:35.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:35.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.594][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.595][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:35.596][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:35.597][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.599][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.600][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:35.602][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:35.603][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.604][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.605][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:35.607][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:35.608][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.609][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.611][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:35.612][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:35.613][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.614][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.616][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:35.617][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:35.618][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.619][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.621][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:35.622][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:35.623][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.624][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.626][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:35.627][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:35.628][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.629][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.631][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:35.632][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:35.633][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.635][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.636][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:35.637][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:35.638][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.640][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.641][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:35.642][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:35.644][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.645][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.646][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:35.647][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:35.649][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.650][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.651][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:35.653][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:35.654][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.655][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.657][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-20 23:22:35.658][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:35.659][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.660][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.662][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-20 23:22:35.663][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:35.664][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.666][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.667][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:35.668][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:35.670][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.671][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.672][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:35.673][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:35.674][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.676][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.677][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:35.678][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:35.679][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.681][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.682][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:35.683][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:35.684][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.686][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.687][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:35.688][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:35.689][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.690][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.692][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:35.693][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:35.694][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.695][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.697][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:35.699][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:35.701][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.720][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:35.723][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:35.725][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.728][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.730][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:35.732][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:35.734][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.736][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.738][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:35.741][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:35.743][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.744][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.746][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:35.749][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:35.750][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.754][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:35.757][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:35.758][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.760][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.761][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:35.762][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:35.763][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.765][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.766][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:35.767][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:35.768][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.770][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.771][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:35.772][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:35.773][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.775][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.776][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:35.777][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:35.778][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.779][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.781][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:35.782][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:35.784][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.785][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.786][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:35.787][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:35.788][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.790][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.791][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:35.792][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:35.794][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.795][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.796][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:35.797][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:35.799][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.800][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.801][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:35.802][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:35.804][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.805][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.806][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:35.807][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:35.809][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.810][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.811][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:35.812][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:35.813][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.815][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.816][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:35.817][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:35.818][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.819][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.821][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:35.822][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:35.823][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.824][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.826][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:35.827][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:35.828][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.829][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.831][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:35.832][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:35.833][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.834][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.836][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:35.837][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:35.838][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.839][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.841][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:35.842][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:35.843][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.844][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.845][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:35.847][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:35.848][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.849][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.850][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:35.852][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:35.853][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.854][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.855][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:35.857][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:35.858][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.859][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.860][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:35.861][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:35.863][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.869][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.870][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:35.872][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:35.874][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.875][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.876][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:35.878][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:35.879][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.880][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.881][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:35.883][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:35.884][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.885][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.887][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:35.888][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:35.889][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.890][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.892][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:35.893][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:35.894][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.895][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.897][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:35.898][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:35.899][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.900][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.902][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:35.903][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:35.904][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.905][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.907][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:35.908][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:35.909][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.910][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.912][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:35.913][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:35.914][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.916][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.918][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:35.919][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:35.920][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.921][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.923][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:35.924][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:35.925][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.926][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.928][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:35.929][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:35.930][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.931][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.933][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:35.934][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:35.935][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.936][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.938][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:35.939][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:35.940][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.941][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.943][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:35.944][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:35.945][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.946][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.948][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:35.949][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:35.950][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.951][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.953][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:35.954][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:35.955][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.956][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.957][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:35.959][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:35.960][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.961][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.962][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:35.964][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:35.965][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.966][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.967][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:35.968][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:35.970][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.971][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.972][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:35.973][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:35.974][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.976][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.977][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-20 23:22:35.978][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:35.979][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.981][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.982][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:35.983][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:35.984][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.985][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.987][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:35.988][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:35.989][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.990][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.991][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:35.993][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:35.994][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:35.995][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:35.997][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-20 23:22:35.998][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:35.999][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.005][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.008][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:36.010][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:36.012][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.013][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.015][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:36.016][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:36.017][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.018][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.019][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:36.021][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:36.022][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.023][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.024][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:36.026][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:36.027][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.028][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.029][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:36.031][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:36.032][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.033][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.034][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:36.036][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:36.037][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.038][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.039][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:36.041][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:36.043][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.046][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:36.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:36.049][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.050][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.051][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:36.052][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:36.054][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.055][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.056][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:36.059][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:36.061][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.062][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.063][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:36.065][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:36.066][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.067][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.068][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:36.069][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:36.071][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.072][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.073][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:36.075][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:36.076][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.077][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.078][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:36.079][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:36.081][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.082][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.083][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:36.084][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:36.085][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.087][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:36.088][self$createEntryFromContent] Accession numbers: HMDB0000001.
biodb.TRACE[2025-01-20 23:22:36.089][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:36.090][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:36.092][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.093][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.094][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:36.095][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:36.097][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.098][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.099][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:36.100][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:36.101][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.103][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.104][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:36.105][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:36.106][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.107][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:36.109][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-20 23:22:36.110][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-20 23:22:36.111][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-20 23:22:36.112][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:36.113][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:36.120][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:36.121][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:36.122][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:36.123][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:36.125][private$loadEntries] Creating entries from ids [1]: "HMDB0000002".
biodb.DEBUG[2025-01-20 23:22:36.126][conn$getEntryContent] Get HMDB Metabolites entry content(s) for 1 id(s)...
biodb.DEBUG[2025-01-20 23:22:36.128][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:36.130][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.TRACE[2025-01-20 23:22:36.133][cch$loadFileContent] Trying to load 1 files from cache: [1]: "HMDB0000002".
biodb.TRACE[2025-01-20 23:22:36.135][cch$loadFileContent] file.exist = [1]: "TRUE".
biodb.TRACE[2025-01-20 23:22:36.137][loadFileContents] Loaded 1 files from cache: [1]: "C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34/HMDB0000002.xml".
biodb.DEBUG[2025-01-20 23:22:36.139][conn$getEntryContent] 1 HMDB Metabolites entry content(s) loaded from cache.
biodb.DEBUG[2025-01-20 23:22:36.168][self$createEntryFromContent] Creating HMDB Metabolites entries from 1 content(s).
biodb.DEBUG[2025-01-20 23:22:36.169][self$createEntryFromContent] Parsing 1 HMDB Metabolites entries.
biodb.DEBUG[2025-01-20 23:22:36.171][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-20 23:22:36.172][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:36.174][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:36.180][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:36.182][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:36.183][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:36.184][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-20 23:22:36.187][ef$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:36.189][ef$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:36.190][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.191][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.193][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:36.194][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:36.195][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.198][ef$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:36.199][ef$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:36.200][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.201][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.203][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:36.204][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:36.205][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.206][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.208][ef$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:36.209][ef$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:36.210][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.211][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.213][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:36.214][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:36.215][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.216][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.218][ef$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:36.219][ef$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:36.220][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.221][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.223][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:36.224][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:36.225][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.226][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.228][ef$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:36.229][ef$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:36.230][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.231][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.233][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:36.234][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:36.235][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.237][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.238][ef$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:36.239][ef$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:36.240][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.242][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.243][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:36.244][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:36.246][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.247][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.248][ef$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:36.249][ef$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:36.251][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.252][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.253][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:36.255][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:36.256][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.257][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.258][ef$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:36.260][ef$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:36.262][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.264][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.266][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:36.276][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:36.279][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.281][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.284][ef$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:36.286][ef$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:36.288][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.290][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.292][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:36.294][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:36.295][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.296][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.298][ef$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:36.299][ef$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:36.300][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.301][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.303][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:36.304][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:36.305][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.307][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.308][ef$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:36.309][ef$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:36.311][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.312][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.313][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:36.315][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:36.316][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.317][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.318][ef$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:36.320][ef$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:36.321][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.322][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.324][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:36.325][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:36.326][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.327][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.329][ef$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:36.330][ef$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:36.331][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.332][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.334][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:36.335][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:36.336][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.337][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.339][ef$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:36.340][ef$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:36.341][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.342][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.344][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:36.345][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:36.346][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.348][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.349][ef$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:36.350][ef$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:36.351][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.353][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.354][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:36.356][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:36.357][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.358][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.359][ef$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:36.361][ef$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:36.362][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.363][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.365][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:36.366][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:36.367][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.368][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.370][ef$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:36.371][ef$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:36.372][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.373][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.375][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:36.376][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:36.377][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.378][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.380][ef$get] Asked field names are: super.class.
biodb.TRACE[2025-01-20 23:22:36.381][ef$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:36.382][ef$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.383][ef$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.385][self$getBiodb()$getEntryFields()$get] Asked field names are: super.class.
biodb.TRACE[2025-01-20 23:22:36.386][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:36.387][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.388][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.390][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:36.391][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:36.393][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.394][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.395][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:36.396][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:36.397][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.399][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.400][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:36.401][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:36.402][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.404][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.405][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:36.406][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:36.407][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.409][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.410][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:36.411][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:36.412][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.419][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.420][self$getBiodb()$getEntryFields()$get] Asked field names are: average.mass.
biodb.TRACE[2025-01-20 23:22:36.422][self$getBiodb()$getEntryFields()$get] Realnames of fields are: average.mass.
biodb.TRACE[2025-01-20 23:22:36.424][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.425][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.427][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:36.428][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:36.429][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.430][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.432][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:36.433][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:36.434][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.435][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.436][self$getBiodb()$getEntryFields()$get] Asked field names are: cas.id.
biodb.TRACE[2025-01-20 23:22:36.438][self$getBiodb()$getEntryFields()$get] Realnames of fields are: cas.id.
biodb.TRACE[2025-01-20 23:22:36.439][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.440][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.441][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:36.443][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:36.444][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.445][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.446][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:36.448][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:36.449][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.450][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.451][self$getBiodb()$getEntryFields()$get] Asked field names are: chebi.id.
biodb.TRACE[2025-01-20 23:22:36.453][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chebi.id.
biodb.TRACE[2025-01-20 23:22:36.454][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.455][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.456][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:36.458][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:36.459][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.460][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.461][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:36.462][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:36.464][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.465][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.466][self$getBiodb()$getEntryFields()$get] Asked field names are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:36.467][self$getBiodb()$getEntryFields()$get] Realnames of fields are: chemspider.id.
biodb.TRACE[2025-01-20 23:22:36.468][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.470][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.471][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:36.472][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:36.473][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.475][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.476][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:36.477][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:36.478][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.479][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.481][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:36.482][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.syst.
biodb.TRACE[2025-01-20 23:22:36.483][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.484][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.486][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:36.487][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:36.488][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.489][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.490][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:36.492][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:36.493][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.494][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.495][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:36.497][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.iupac.name.trad.
biodb.TRACE[2025-01-20 23:22:36.498][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.499][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.500][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:36.502][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:36.503][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.504][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.505][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:36.506][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:36.508][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.509][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.510][self$getBiodb()$getEntryFields()$get] Asked field names are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:36.511][self$getBiodb()$getEntryFields()$get] Realnames of fields are: comp.super.class.
biodb.TRACE[2025-01-20 23:22:36.512][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.514][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.515][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:36.516][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:36.517][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.518][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.520][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:36.521][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:36.522][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.523][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.525][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:36.526][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:36.527][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.528][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.529][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:36.531][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:36.532][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.533][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.534][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:36.535][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:36.537][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.538][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.539][self$getBiodb()$getEntryFields()$get] Asked field names are: formula.
biodb.TRACE[2025-01-20 23:22:36.540][self$getBiodb()$getEntryFields()$get] Realnames of fields are: formula.
biodb.TRACE[2025-01-20 23:22:36.542][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.543][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.544][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:36.545][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:36.552][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.553][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.555][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:36.556][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:36.558][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.559][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.560][self$getBiodb()$getEntryFields()$get] Asked field names are: inchi.
biodb.TRACE[2025-01-20 23:22:36.562][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchi.
biodb.TRACE[2025-01-20 23:22:36.563][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.564][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.565][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:36.567][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:36.568][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.569][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.570][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:36.571][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:36.573][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.574][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.575][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:36.576][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:36.577][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.579][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.580][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:36.581][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:36.582][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.583][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.585][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:36.586][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:36.587][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.588][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.590][self$getBiodb()$getEntryFields()$get] Asked field names are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:36.591][self$getBiodb()$getEntryFields()$get] Realnames of fields are: kegg.compound.id.
biodb.TRACE[2025-01-20 23:22:36.592][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.593][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.594][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:36.596][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:36.597][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.598][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.599][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:36.601][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:36.602][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.603][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.604][self$getBiodb()$getEntryFields()$get] Asked field names are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:36.606][self$getBiodb()$getEntryFields()$get] Realnames of fields are: monoisotopic.mass.
biodb.TRACE[2025-01-20 23:22:36.607][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.608][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.609][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:36.610][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:36.612][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.613][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.614][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:36.615][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:36.617][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.618][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.619][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:36.620][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:36.621][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.623][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.624][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:36.625][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:36.626][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.628][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.629][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:36.630][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:36.631][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.632][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.634][self$getBiodb()$getEntryFields()$get] Asked field names are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:36.635][self$getBiodb()$getEntryFields()$get] Realnames of fields are: ncbi.pubchem.comp.id.
biodb.TRACE[2025-01-20 23:22:36.636][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.637][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.639][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:36.640][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:36.641][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.642][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.644][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:36.645][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:36.646][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.647][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.648][self$getBiodb()$getEntryFields()$get] Asked field names are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:36.650][self$getBiodb()$getEntryFields()$get] Realnames of fields are: secondary.accessions.
biodb.TRACE[2025-01-20 23:22:36.651][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.652][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.653][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:36.655][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:36.656][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.657][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.658][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:36.660][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:36.661][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.662][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.663][self$getBiodb()$getEntryFields()$get] Asked field names are: smiles.
biodb.TRACE[2025-01-20 23:22:36.665][self$getBiodb()$getEntryFields()$get] Realnames of fields are: smiles.
biodb.TRACE[2025-01-20 23:22:36.666][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.667][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.668][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-20 23:22:36.670][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:36.671][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.672][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.673][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:36.675][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:36.676][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.677][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.678][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:36.685][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:36.687][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.688][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.690][self$getBiodb()$getEntryFields()$get] Asked field names are: inchikey.
biodb.TRACE[2025-01-20 23:22:36.691][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:36.692][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.694][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.695][self$getBiodb()$getEntryFields()$get] Asked field names are: INCHIKEY.
biodb.TRACE[2025-01-20 23:22:36.697][self$getBiodb()$getEntryFields()$get] Realnames of fields are: inchikey.
biodb.TRACE[2025-01-20 23:22:36.698][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.699][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.701][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:36.703][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:36.704][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.705][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.706][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:36.708][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:36.709][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.710][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.711][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:36.713][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:36.715][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.717][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.719][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:36.721][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:36.723][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.724][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.726][self$getBiodb()$getEntryFields()$get] Asked field names are: name.
biodb.TRACE[2025-01-20 23:22:36.727][self$getBiodb()$getEntryFields()$get] Realnames of fields are: name.
biodb.TRACE[2025-01-20 23:22:36.729][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.731][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.733][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:36.735][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:36.737][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.739][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.741][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:36.743][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:36.745][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.747][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.749][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:36.750][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:36.751][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.752][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.754][self$getBiodb()$getEntryFields()$get] Asked field names are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:36.755][self$getBiodb()$getEntryFields()$get] Realnames of fields are: hmdb.metabolites.id.
biodb.TRACE[2025-01-20 23:22:36.756][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.757][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.758][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:36.760][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:36.761][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.762][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.763][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:36.765][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:36.766][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.767][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.768][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:36.770][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:36.771][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.772][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.773][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:36.775][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:36.776][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.777][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.778][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:36.780][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:36.781][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.782][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.783][self$getBiodb()$getEntryFields()$get] Asked field names are: accession.
biodb.TRACE[2025-01-20 23:22:36.784][self$getBiodb()$getEntryFields()$get] Realnames of fields are: accession.
biodb.TRACE[2025-01-20 23:22:36.785][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.787][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:36.788][self$createEntryFromContent] Accession numbers: HMDB0000002.
biodb.TRACE[2025-01-20 23:22:36.789][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:36.791][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:36.792][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.793][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.794][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:36.796][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:36.797][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.798][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.799][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:36.800][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:36.802][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.803][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.804][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:36.805][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:36.807][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.808][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:36.809][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-20 23:22:36.810][private$doSearchForEntries] COUNT IDS = 2
biodb.DEBUG[2025-01-20 23:22:36.812][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-20 23:22:36.813][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:36.814][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:36.909][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:36.911][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:36.912][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:36.913][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:36.925][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-20 23:22:36.927][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-01-20 23:22:36.928][private$doSearchForEntries] fields VALUES = c("histidine", "cerebrovascular")
biodb.DEBUG[2025-01-20 23:22:36.931][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:36.933][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:36.934][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-20 23:22:36.936][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:36.938][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-20 23:22:36.952][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-20 23:22:36.953][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-20 23:22:36.955][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-20 23:22:36.956][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-20 23:22:36.957][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-20 23:22:36.959][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-20 23:22:36.961][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:36.962][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:36.963][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.965][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.966][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:36.967][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:36.968][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.970][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.971][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:36.972][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:36.973][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.974][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.976][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:36.977][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:36.978][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.979][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.981][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:36.982][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:36.983][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.984][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.986][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:36.987][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:36.988][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.989][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:36.991][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:36.992][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:36.993][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:36.994][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:36.996][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-20 23:22:36.997][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-20 23:22:36.998][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-20 23:22:36.999][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:37.000][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:37.012][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:37.013][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:37.014][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:37.015][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-20 23:22:37.017][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.018][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.020][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.021][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:37.022][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.023][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.024][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.026][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:37.027][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.028][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.029][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.031][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:37.032][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.033][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.034][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.036][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:37.037][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.038][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.039][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.041][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:37.042][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.043][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.044][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.045][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:37.047][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.048][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.055][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.056][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:37.058][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-01-20 23:22:37.059][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-20 23:22:37.061][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-20 23:22:37.062][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:37.063][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:37.070][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:37.071][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:37.072][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:37.073][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.DEBUG[2025-01-20 23:22:37.079][private$doSearchForEntries] fields NAMES = description
biodb.DEBUG[2025-01-20 23:22:37.080][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-01-20 23:22:37.081][private$doSearchForEntries] fields VALUES = c("monoalkylamines", "shiitakes")
biodb.DEBUG[2025-01-20 23:22:37.083][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:37.085][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:37.087][private$doGetEntryIds] .doGetEntryIds 10
biodb.DEBUG[2025-01-20 23:22:37.089][self$isDownloaded] Database hmdb.metabolites has already been downloaded.
biodb.DEBUG[2025-01-20 23:22:37.090][private$doGetEntryIds] .doGetEntryIds 11
biodb.DEBUG[2025-01-20 23:22:37.092][private$doListFiles] List files in C:\Users\biocbuild\AppData\Local/R/cache/R/biodb/hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^.*\.xml$.
biodb.DEBUG[2025-01-20 23:22:37.093][cch$listFiles] Extracting accession number from file names associated with hmdb.metabolites-9e094cf1e5980f9ac69d952373fb6d34 using pattern ^(.*)\.xml$
biodb.DEBUG[2025-01-20 23:22:37.094][cch$listFiles] files = HMDB0000001.xml, HMDB0000002.xml
biodb.DEBUG[2025-01-20 23:22:37.096][private$doGetEntryIds] COUNT IDS = 2
biodb.DEBUG[2025-01-20 23:22:37.097][private$doSearchForEntries] All IDs = [2]: "HMDB0000001, HMDB0000002"
biodb.DEBUG[2025-01-20 23:22:37.098][private$doSearchForEntries] Total number of IDs = 2
biodb.TRACE[2025-01-20 23:22:37.100][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.102][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.103][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.104][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:37.105][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.107][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.108][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.109][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:37.110][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.112][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.113][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.114][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:37.115][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.117][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.118][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.119][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:37.120][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.122][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.123][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.124][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:37.125][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.127][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.128][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.129][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:37.130][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.131][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.133][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.134][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:37.135][private$doSearchForEntries] MATCHED = FALSE
biodb.DEBUG[2025-01-20 23:22:37.136][private$doSearchForEntries] COUNT IDS = 0
biodb.DEBUG[2025-01-20 23:22:37.138][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-20 23:22:37.139][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:37.140][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:37.146][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:37.148][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:37.149][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:37.150][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.TRACE[2025-01-20 23:22:37.152][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.154][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.156][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.158][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:37.160][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.161][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.163][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.165][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:37.167][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.169][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.171][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.173][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:37.175][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.177][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.178][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.180][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:37.182][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.184][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.186][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.188][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:37.190][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.192][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.194][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.196][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.TRACE[2025-01-20 23:22:37.197][self$getBiodb()$getEntryFields()$get] Asked field names are: description.
biodb.TRACE[2025-01-20 23:22:37.199][self$getBiodb()$getEntryFields()$get] Realnames of fields are: description.
biodb.TRACE[2025-01-20 23:22:37.201][self$getBiodb()$getEntryFields()$get] 1 fields were returned.
biodb.TRACE[2025-01-20 23:22:37.203][self$getBiodb()$getEntryFields()$get] fields variable is a list.
biodb.DEBUG[2025-01-20 23:22:37.205][private$doSearchForEntries] MATCHED = TRUE
biodb.DEBUG[2025-01-20 23:22:37.215][private$doSearchForEntries] COUNT IDS = 1
biodb.DEBUG[2025-01-20 23:22:37.217][notifyObservers] Notify observers for notifyProgress.
biodb.DEBUG[2025-01-20 23:22:37.219][FUN] Trying to call function notifyProgress on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:37.221][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:37.239][FUN] Trying to call function notifyProgress on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:37.241][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:37.242][FUN] Trying to call function notifyProgress on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:37.243][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
biodb.INFO [2025-01-20 23:22:37.267][biodb$terminate] Closing BiodbMain instance...
biodb.DEBUG[2025-01-20 23:22:37.269][private$conn[[conn]]$.__enclos_env__ ...] Unregister connector hmdb.metabolites from the request scheduler
biodb.INFO [2025-01-20 23:22:37.270][self$deleteConn] Connector "hmdb.metabolites" deleted.
biodb.DEBUG[2025-01-20 23:22:37.271][notifyObservers] Notify observers for terminate.
biodb.DEBUG[2025-01-20 23:22:37.272][FUN] Trying to call function terminate on observer BiodbTestMsgAck.
biodb.DEBUG[2025-01-20 23:22:37.274][FUN] Functions in observer BiodbTestMsgAck: [4]: ".__enclos_env__, clone, notifyProgress, initialize".
biodb.DEBUG[2025-01-20 23:22:37.275][FUN] Trying to call function terminate on observer BiodbEntryFields.
biodb.DEBUG[2025-01-20 23:22:37.276][FUN] Functions in observer BiodbEntryFields: [15]: ".__enclos_env__, clone, terminate, define, print, getDatabaseIdField, getFieldNames, get, getRealName, checkIsDefined, isDefined, formatName, isAlias, notifyCfgUpdate, initialize".
biodb.DEBUG[2025-01-20 23:22:37.277][FUN] Trying to call function terminate on observer BiodbConfig.
biodb.DEBUG[2025-01-20 23:22:37.278][FUN] Functions in observer BiodbConfig: [21]: ".__enclos_env__, clone, terminate, notifyNewObservers, define, getAssocEnvVar, listKeys, print, disable, enable, reset, set, get, isEnabled, isDefined, hasKey, getDefaultValue, getDescription, getTitle, getKeys, initialize".
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 243 ]
> 
> proc.time()
   user  system elapsed 
  10.56    0.59   15.26

Example timings